Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 57 of 292
Found at i:16798364 original size:7 final size:7
Alignment explanation
Indices: 16798352--16798379 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
16798342 TTCCCTCTCC
16798352 CCCCCAA
1 CCCCCAA
16798359 CCCCCAA
1 CCCCCAA
16798366 CCCCCAA
1 CCCCCAA
16798373 CCCCCAA
1 CCCCCAA
16798380 GATTAACATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.71, G:0.00, T:0.00
Consensus pattern (7 bp):
CCCCCAA
Found at i:16803689 original size:32 final size:32
Alignment explanation
Indices: 16803653--16803716 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
16803643 GGATATAGCG
* *
16803653 GAGTAAAAATATGTATTTTCTAATAATGTTGT
1 GAGTAAAAAAATATATTTTCTAATAATGTTGT
*
16803685 GAGTAAAAAAATATATTTTTTAATAATGTTGT
1 GAGTAAAAAAATATATTTTCTAATAATGTTGT
16803717 CGTCACAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.44
Consensus pattern (32 bp):
GAGTAAAAAAATATATTTTCTAATAATGTTGT
Found at i:16806656 original size:40 final size:40
Alignment explanation
Indices: 16806591--16806833 Score: 276
Period size: 40 Copynumber: 6.1 Consensus size: 40
16806581 CGGAATACAA
* ** * * *
16806591 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* *
16806631 CCGAATATAACGACTTGCACAAATGCCTT-GGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
16806670 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
16806710 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * *
16806750 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
* ** * * *
16806790 CCGAATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
16806830 CCGG
1 CCGG
16806834 GTATCATTCA
Statistics
Matches: 176, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 36 0.20
40 139 0.79
41 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:16807021 original size:123 final size:123
Alignment explanation
Indices: 16806802--16807140 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
16806792 GAATATAATT
* * * * * * **
16806802 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
*
16806867 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
16806925 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
16806990 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
16807048 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
16807113 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
16807141 CACATAATTC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:16813548 original size:40 final size:40
Alignment explanation
Indices: 16813451--16813693 Score: 294
Period size: 40 Copynumber: 6.1 Consensus size: 40
16813441 CGGAATACAA
* ** * * *
16813451 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
16813491 CC-GATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
16813530 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
16813570 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * *
16813610 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
** * * *
16813650 CCGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
16813690 CCGG
1 CCGG
16813694 GTATCATTCA
Statistics
Matches: 180, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 33 0.18
40 146 0.81
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:16813881 original size:123 final size:123
Alignment explanation
Indices: 16813662--16814000 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
16813652 GGATATAATT
* * * * * * **
16813662 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
*
16813727 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
16813785 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
16813850 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
16813908 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
16813973 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
16814001 CACATAATTC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:16818137 original size:2 final size:2
Alignment explanation
Indices: 16818120--16818153 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
16818110 TTTGTGATTG
*
16818120 TA TA AA TA TCA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA T
16818154 GTATGACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:16818214 original size:19 final size:17
Alignment explanation
Indices: 16818182--16818233 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
16818172 ATTCGAGAAA
*
16818182 GCCTGATAAGTGATAAT
1 GCCTGATAAATGATAAT
16818199 GCCTGAAATAAATGATAAT
1 GCCTG--ATAAATGATAAT
*
16818218 GTCTGATAAATGATAA
1 GCCTGATAAATGATAA
16818234 AAAAAAATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 16 0.52
19 15 0.48
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (17 bp):
GCCTGATAAATGATAAT
Found at i:16820748 original size:9 final size:9
Alignment explanation
Indices: 16820727--16820784 Score: 61
Period size: 9 Copynumber: 6.7 Consensus size: 9
16820717 AATTAATTTT
16820727 TAAAAATTA
1 TAAAAATTA
16820736 -AAAAATTA
1 TAAAAATTA
16820744 TAAAAATTA
1 TAAAAATTA
16820753 TTTAAAAA-T-
1 --TAAAAATTA
16820762 T-AAAATTA
1 TAAAAATTA
*
16820770 TTAAAATTA
1 TAAAAATTA
16820779 TAAAAA
1 TAAAAA
16820785 ATATTTTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
6 4 0.10
7 2 0.05
8 9 0.21
9 20 0.48
10 1 0.02
11 6 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:16820766 original size:26 final size:27
Alignment explanation
Indices: 16820721--16820779 Score: 86
Period size: 26 Copynumber: 2.2 Consensus size: 27
16820711 GCAATTAATT
16820721 AATT-TTTAAAAATTAAAAAATTATAAA
1 AATTATTTAAAAATT-AAAAATTATAAA
*
16820748 AATTATTTAAAAATT-AAAATTATTAA
1 AATTATTTAAAAATTAAAAATTATAAA
16820774 AATTAT
1 AATTAT
16820780 AAAAAATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 16 0.53
27 4 0.13
28 10 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (27 bp):
AATTATTTAAAAATTAAAAATTATAAA
Found at i:16820782 original size:17 final size:18
Alignment explanation
Indices: 16820737--16820783 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
16820727 TAAAAATTAA
16820737 AAAATTATAAAAATTATTT
1 AAAATTAT-AAAATTATTT
*
16820756 AAAAAT-TAAAATTA-TT
1 AAAATTATAAAATTATTT
16820772 AAAATTATAAAA
1 AAAATTATAAAA
16820784 AATATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 7 0.28
17 12 0.48
18 1 0.04
19 5 0.20
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATTATAAAATTATTT
Found at i:16820785 original size:26 final size:27
Alignment explanation
Indices: 16820728--16820785 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
16820718 ATTAATTTTT
**
16820728 AAAAATTAAAAAATTATAAAAATTATTT
1 AAAAATT-AAAAATTATAAAAATTATAA
*
16820756 AAAAATT-AAAATTATTAAAATTATAA
1 AAAAATTAAAAATTATAAAAATTATAA
16820782 AAAA
1 AAAA
16820786 TATTTTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 20 0.74
28 7 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (27 bp):
AAAAATTAAAAATTATAAAAATTATAA
Found at i:16826571 original size:24 final size:23
Alignment explanation
Indices: 16826544--16826602 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 23
16826534 TCTCCCAAGA
* *
16826544 TTAGGATTTTTAATATTTTTAGGT
1 TTAGG-TTTTTAATATTTCTACGT
16826568 TTAGGGTTTTTAATATTTCTACGT
1 TTA-GGTTTTTAATATTTCTACGT
16826592 TTAAGGTTTTT
1 TT-AGGTTTTT
16826603 CTTTTAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 28 0.90
25 3 0.10
ACGTcount: A:0.22, C:0.03, G:0.17, T:0.58
Consensus pattern (23 bp):
TTAGGTTTTTAATATTTCTACGT
Found at i:16830739 original size:44 final size:44
Alignment explanation
Indices: 16830676--16830761 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 44
16830666 TACTAAAAAA
16830676 GACGCGTCATTTGCCAATAACCTCGACTGTGAAAGAAACATAAG
1 GACGCGTCATTTGCCAATAACCTCGACTGTGAAAGAAACATAAG
*
16830720 GACGCGTCATTTGCCAATAACCTCGATTGTGAAAGAAACATA
1 GACGCGTCATTTGCCAATAACCTCGACTGTGAAAGAAACATA
16830762 CTTTCACCTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (44 bp):
GACGCGTCATTTGCCAATAACCTCGACTGTGAAAGAAACATAAG
Found at i:16841152 original size:16 final size:16
Alignment explanation
Indices: 16841133--16841164 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
16841123 TTGTTTTACT
16841133 TACTTTGTGCTTTAAC
1 TACTTTGTGCTTTAAC
16841149 TACTTTGTGCTTTAAC
1 TACTTTGTGCTTTAAC
16841165 CTTCTGTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.50
Consensus pattern (16 bp):
TACTTTGTGCTTTAAC
Found at i:16848139 original size:16 final size:16
Alignment explanation
Indices: 16848113--16848155 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
16848103 ACAAGAGAAT
16848113 GAAAGAAAAAAAAA-A
1 GAAAGAAAAAAAAATA
16848128 GAAAGTAAAAAAAAATA
1 GAAAG-AAAAAAAAATA
16848145 -AAAGAAAAAAA
1 GAAAGAAAAAAA
16848156 TTAAATTGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 12 0.46
16 13 0.50
17 1 0.04
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.05
Consensus pattern (16 bp):
GAAAGAAAAAAAAATA
Found at i:16859117 original size:36 final size:36
Alignment explanation
Indices: 16859070--16859141 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
16859060 CTTTCAAGAA
16859070 AGATAAATGGAAGCATCTAATAGTGAAATCTAAAGC
1 AGATAAATGGAAGCATCTAATAGTGAAATCTAAAGC
16859106 AGATAAATGGAAGCATCTAATAGTGAAATCTAAAGC
1 AGATAAATGGAAGCATCTAATAGTGAAATCTAAAGC
16859142 TAGGAACATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.22
Consensus pattern (36 bp):
AGATAAATGGAAGCATCTAATAGTGAAATCTAAAGC
Found at i:16861643 original size:48 final size:48
Alignment explanation
Indices: 16861483--16861652 Score: 138
Period size: 48 Copynumber: 3.7 Consensus size: 48
16861473 AGATCCATTA
* ** * * *
16861483 TAAGATCATATCTGGGATATGGCATCAGCATTG-GTATGTGTTATCATG
1 TAAGACCATATCTGGGATATGGCATTGGCATCGAGT-TGTGATCTCATG
* * * *
16861531 TAAGACCATATCTGAGATATGGCGTT-G-AT--A--TGAGATCCCATG
1 TAAGACCATATCTGGGATATGGCATTGGCATCGAGTTGTGATCTCATG
* ** *
16861573 TAAGACCATGTCCAGGACATGGCATTGGCATCGAGTTGTGATCTCATG
1 TAAGACCATATCTGGGATATGGCATTGGCATCGAGTTGTGATCTCATG
* *
16861621 TAAGACTATATCTGGGATATGGCGTTGGCATC
1 TAAGACCATATCTGGGATATGGCATTGGCATC
16861653 TTACTATGTG
Statistics
Matches: 93, Mismatches: 22, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
42 28 0.30
43 1 0.01
44 2 0.02
46 3 0.03
47 1 0.01
48 58 0.62
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (48 bp):
TAAGACCATATCTGGGATATGGCATTGGCATCGAGTTGTGATCTCATG
Found at i:16864935 original size:49 final size:49
Alignment explanation
Indices: 16864863--16865056 Score: 221
Period size: 50 Copynumber: 3.9 Consensus size: 49
16864853 GCCGAAGCTA
* *
16864863 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* *
16864912 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAACAG
** * * *
16864962 TCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * *
16865010 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
16865057 TCACAATAGA
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 39 0.32
50 40 0.33
51 40 0.33
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.25
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
Found at i:16865047 original size:101 final size:99
Alignment explanation
Indices: 16864874--16865060 Score: 277
Period size: 101 Copynumber: 1.9 Consensus size: 99
16864864 CTGGTACGCA
* *
16864874 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACATAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
*
16864939 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * *
16864973 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
*
16865037 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
16865061 AATAGATCAT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
98 4 0.05
99 30 0.38
101 44 0.56
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:16868080 original size:38 final size:37
Alignment explanation
Indices: 16868033--16868304 Score: 393
Period size: 38 Copynumber: 7.2 Consensus size: 37
16868023 GGCCTAAAGA
*
16868033 CCCGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TCGTGCTGGAA-TATATCCGGGTTAAAT
*
16868071 CTCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGG-AATATATCCGGGTTAAAT
* *
16868109 CCCGCAGGCTTCGTGCTGTAATATATCCGAGTTAAAT
1 CCCGCAGGCTTCGTGCTGGAATATATCCGGGTTAAAT
* **
16868146 CCCACAGGCTTAATGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGG-AATATATCCGGGTTAAAT
* *
16868184 CCCACAGGCTTCGTGCTGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGAATATATCCGGGTTAAAT
*
16868221 CCCGCAGGCTTCGTTCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGG-AATATATCCGGGTTAAAT
*
16868259 CCCGCAGGCTTCGTGCTGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGAATATATCCGGGTTAAAT
16868296 CCCGCAGGC
1 CCCGCAGGC
16868305 CTAGTGTTGG
Statistics
Matches: 212, Mismatches: 18, Indels: 9
0.89 0.08 0.04
Matches are distributed among these distances:
37 94 0.44
38 116 0.55
39 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (37 bp):
CCCGCAGGCTTCGTGCTGGAATATATCCGGGTTAAAT
Found at i:16868145 original size:75 final size:75
Alignment explanation
Indices: 16868033--16868322 Score: 438
Period size: 75 Copynumber: 3.9 Consensus size: 75
16868023 GGCCTAAAGA
* * * *
16868033 CCCGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTAATATA
1 CCCGCAGGCT-TCGTGCTGTAA-TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATATA
16868097 TCCGGGTTAAAT
64 TCCGGGTTAAAT
* * *
16868109 CCCGCAGGCTTCGTGCTGTAATATATCCGAGTTAAATCCCACAGGCTTAATGCTGGTAATATATC
1 CCCGCAGGCTTCGTGCTGTAATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATATATC
16868174 CGGGTTAAAT
66 CGGGTTAAAT
* * *
16868184 CCCACAGGCTTCGTGCTGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTTCTGGTAATATATC
1 CCCGCAGGCTTCGTGCTGTAATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATATATC
16868249 CGGGTTAAAT
66 CGGGTTAAAT
* * *
16868259 CCCGCAGGCTTCGTGCTGTAATATATCCGGGTTAAATCCCGCAGGCCTAGTGTTGGTATTATAT
1 CCCGCAGGCTTCGTGCTGTAATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATATAT
16868323 TCGTGCCTTC
Statistics
Matches: 194, Mismatches: 19, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
75 177 0.91
76 17 0.09
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (75 bp):
CCCGCAGGCTTCGTGCTGTAATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATATATC
CGGGTTAAAT
Found at i:16868368 original size:43 final size:43
Alignment explanation
Indices: 16868320--16868429 Score: 195
Period size: 43 Copynumber: 2.6 Consensus size: 43
16868310 GTTGGTATTA
*
16868320 TATTCGTGCCTTCGTGCCTAGCAGGCTTCGTGCC-GATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAG-TGATGTG
16868363 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
16868406 TATTCGGGCCTTCGTGCCTAGCAG
1 TATTCGGGCCTTCGTGCCTAGCAG
16868430 CCGTAATGTC
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
43 64 0.98
44 1 0.02
ACGTcount: A:0.12, C:0.26, G:0.31, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
Found at i:16873788 original size:11 final size:11
Alignment explanation
Indices: 16873774--16873821 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
16873764 TGTTGATAGT
16873774 TGCTTGATTCA
1 TGCTTGATTCA
16873785 TGCTTGATTCA
1 TGCTTGATTCA
*
16873796 TACTTGATTTCA
1 TGCTTGA-TTCA
* *
16873808 TGCATGAATCA
1 TGCTTGATTCA
16873819 TGC
1 TGC
16873822 AAGGGGTTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
11 23 0.72
12 9 0.28
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.42
Consensus pattern (11 bp):
TGCTTGATTCA
Found at i:16873819 original size:23 final size:22
Alignment explanation
Indices: 16873776--16873819 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
16873766 TTGATAGTTG
* *
16873776 CTTGATTCATGCTTGATTCATA
1 CTTGATTCATGCATGAATCATA
16873798 CTTGATTTCATGCATGAATCAT
1 CTTGA-TTCATGCATGAATCAT
16873820 GCAAGGGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (22 bp):
CTTGATTCATGCATGAATCATA
Found at i:16877595 original size:94 final size:92
Alignment explanation
Indices: 16877378--16877602 Score: 247
Period size: 94 Copynumber: 2.4 Consensus size: 92
16877368 TCTTATTTTA
* * * * *
16877378 AACATAAATGGGCAAAAACCAAAATTTTCACCACACTATTTTAATTTACCTATTTGATAATTTAG
1 AACATAAAT-GGCAAAAAACAGAATTTTCATCACACTATTTAAATTTACCTATTTGATAATTGAG
* *
16877443 CACGCCCCCTCCCTTACACTCTTTGTTT
65 CACGACCCCTCCCTTACACCCTTTGTTT
** *
16877471 AACATAAATGGCCAAAAAATGGAACTTTTCATCACACTCTTTAAATTTACCTATTTGATAATTGA
1 AACATAAATGG-CAAAAAACAGAA-TTTTCATCACACTATTTAAATTTACCTATTTGATAATTGA
* * *
16877536 GCAC-ACCTCTTCCTTA-ACCCTTTTTATT
64 GCACGACCCCTCCCTTACACCCTTTGT-TT
*
16877564 GAACATAAATGGTAAAAATACAGAATATTTCATCACACT
1 -AACATAAATGGCAAAAA-ACAGAAT-TTTCATCACACT
16877603 TTTTTTTTTT
Statistics
Matches: 110, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
92 9 0.08
93 34 0.31
94 67 0.61
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.34
Consensus pattern (92 bp):
AACATAAATGGCAAAAAACAGAATTTTCATCACACTATTTAAATTTACCTATTTGATAATTGAGC
ACGACCCCTCCCTTACACCCTTTGTTT
Found at i:16884296 original size:22 final size:22
Alignment explanation
Indices: 16884268--16884319 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
16884258 CCGGTGTTGT
16884268 TTTTTTTAGAGAAAAAAGTTTG
1 TTTTTTTAGAGAAAAAAGTTTG
16884290 TTTTTTTAGAGAAAAAAGTTTG
1 TTTTTTTAGAGAAAAAAGTTTG
16884312 TTTTTTTA
1 TTTTTTTA
16884320 ATAAGGGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (22 bp):
TTTTTTTAGAGAAAAAAGTTTG
Found at i:16887231 original size:18 final size:18
Alignment explanation
Indices: 16887208--16887261 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
16887198 CCACCACCAA
16887208 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
16887226 CT-C-C-A-CCAC-C-TA
1 CTCCACTAGCCACACTTG
16887238 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
16887256 CTCCAC
1 CTCCAC
16887262 CACCTACTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 2 0.07
14 5 0.18
15 2 0.07
16 5 0.18
17 2 0.07
18 9 0.32
ACGTcount: A:0.22, C:0.50, G:0.07, T:0.20
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:16887234 original size:30 final size:30
Alignment explanation
Indices: 16887198--16887296 Score: 171
Period size: 30 Copynumber: 3.3 Consensus size: 30
16887188 CTAGCCTTTG
16887198 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
16887228 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
16887258 CCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
16887288 CCACCACCA
1 CCACCACCA
16887297 CTTGTACCTA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 66 1.00
ACGTcount: A:0.25, C:0.51, G:0.06, T:0.18
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:16887899 original size:25 final size:24
Alignment explanation
Indices: 16887776--16887906 Score: 101
Period size: 25 Copynumber: 5.5 Consensus size: 24
16887766 TTTTTTTTGT
* *
16887776 TATTAT-TATATTTTTTAATATTA
1 TATTATGTATATTCTTTAATACTA
* *
16887799 TATTATATATATTCTTT--TAATA
1 TATTATGTATATTCTTTAATACTA
* * *
16887821 TATTAGGTATATTC-TAAATTCTA
1 TATTATGTATATTCTTTAATACTA
* *
16887844 TATTACGTATATATATATT-ATACTA
1 TATTATGTATAT-TCT-TTAATACTA
*
16887869 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATAT-TCTTTAATACTA
*
16887894 TATTATTTATATT
1 TATTATGTATATT
16887907 TTTTTTTCTA
Statistics
Matches: 85, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
21 1 0.01
22 16 0.19
23 20 0.24
24 13 0.15
25 34 0.40
26 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.56
Consensus pattern (24 bp):
TATTATGTATATTCTTTAATACTA
Found at i:16887971 original size:25 final size:25
Alignment explanation
Indices: 16887841--16887988 Score: 102
Period size: 25 Copynumber: 5.9 Consensus size: 25
16887831 ATTCTAAATT
* * * *
16887841 CTATATTACGTATATATATATTATA
1 CTATATTATGTATATATTTTTTACA
* * * *
16887866 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATTTTTTACA
* * *
16887891 CTATATTATTTATATTTTTTTTTCTA
1 CTATATTATGTATATATTTTTTAC-A
* * *
16887917 C-ATGTTATCTTATGATATATTTTA-A
1 CTATATTAT-GTAT-ATATTTTTTACA
* *
16887942 TTATATTATGTATGTATTTTTTACA
1 CTATATTATGTATATATTTTTTACA
*
16887967 CTATATTATGTACATATTTTTT
1 CTATATTATGTATATATTTTTT
16887989 TATATCTATT
Statistics
Matches: 94, Mismatches: 24, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
24 8 0.09
25 67 0.71
26 12 0.13
27 7 0.07
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.57
Consensus pattern (25 bp):
CTATATTATGTATATATTTTTTACA
Found at i:16888077 original size:25 final size:24
Alignment explanation
Indices: 16888049--16888104 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
16888039 GTTATATTTT
*
16888049 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
16888074 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
16888097 CACTATTA
1 CACTATTA
16888105 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:16899179 original size:17 final size:17
Alignment explanation
Indices: 16899159--16899191 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
16899149 AGGGCATCTT
16899159 AAAA-AAAAAGAGAAAAG
1 AAAAGAAAAA-AGAAAAG
16899176 AAAAGAAAAAAGAAAA
1 AAAAGAAAAAAGAAAA
16899192 AGAGAGGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAAGAAAAG
Found at i:16900229 original size:13 final size:13
Alignment explanation
Indices: 16900208--16900251 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
16900198 CGCCGAGGTA
16900208 TTTTTAATTT-TG
1 TTTTTAATTTCTG
16900220 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
*
16900234 CTTTTAATTTCTG
1 TTTTTAATTTCTG
16900247 TTTTT
1 TTTTT
16900252 CAAAAATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 5 0.18
13 17 0.61
14 6 0.21
ACGTcount: A:0.14, C:0.09, G:0.07, T:0.70
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:16900323 original size:99 final size:100
Alignment explanation
Indices: 16900120--16900504 Score: 408
Period size: 99 Copynumber: 4.0 Consensus size: 100
16900110 CGCTGAGGTA
* ** * *
16900120 TTTTCAATTTCCGTTTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCT
1 TTTTCAATTTCTGCCTTTT-AATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
* * * * *
16900185 GAGCCTCGGGGCACGCCGAGGTATTTTTAATTTTGT
65 GAGCCTCAGGACACGCTGAGGTATTTTCAATTTTAT
*
16900221 TTTTCAATTTCTG-CTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
1 TTTTCAATTTCTGCCTTTTAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
*
16900285 AGCCT-AGGGCACGCTGAGGTATTTTCAATTTCTAT
66 AGCCTCAGGACACGCTGAGGTATTTTCAATTT-TAT
* ** * *
16900320 TTTTCAATTTTTGCCTTACAAATTCTGCTTTTT---AAATCAACTCATATTGCGAGAGGTGAGTT
1 TTTTCAATTTCTGCCTTTTAATTTATG-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
16900382 GAGCCTCAGGACACGCTGAGGTATTTTC-A----A-
65 GAGCCTCAGGACACGCTGAGGTATTTTCAATTTTAT
* ** *
16900412 TTTTC--GTT-T---TTTTAATTTATGTTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTT
1 TTTTCAATTTCTGCCTTTTAATTTATGTTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
* *
16900471 GAGCCTCAGGACACGCTAAGGTAATTTCAATTTT
65 GAGCCTCAGGACACGCTGAGGTATTTTCAATTTT
16900505 TGTTTGTCAA
Statistics
Matches: 248, Mismatches: 23, Indels: 33
0.82 0.08 0.11
Matches are distributed among these distances:
85 3 0.01
86 9 0.04
89 55 0.22
90 3 0.01
92 5 0.02
93 1 0.00
98 59 0.24
99 82 0.33
100 14 0.06
101 17 0.07
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (100 bp):
TTTTCAATTTCTGCCTTTTAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
AGCCTCAGGACACGCTGAGGTATTTTCAATTTTAT
Found at i:16900632 original size:75 final size:75
Alignment explanation
Indices: 16900420--16901030 Score: 785
Period size: 73 Copynumber: 8.3 Consensus size: 75
16900410 AATTTTCGTT
* * * * *
16900420 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* *
16900484 CGCTAAGGTA
66 CGTTGAGGTA
* * * * *
16900494 ATTTCAATTTTTGTTTGTC--AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
16900557 CGTTGAGGTA
66 CGTTGAGGTA
* * *
16900567 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTTAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
16900632 CGCTGAGGTA
66 CGTTGAGGTA
* * *
16900642 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
16900705 CGTTGAGGTA
66 CGTTGAGGTA
* * * *
16900715 TTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
16900780 CGTTGAGGTA
66 CGTTGAGGTA
* * *
16900790 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGCTGAACCTCAAG--A
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
16900853 CGCTGAGGTA
66 CGTTGAGGTA
* * *
16900863 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
16900926 CGTTGAGGTA
66 CGTTGAGGTA
* * * *
16900936 TTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAAAGGTGAGTTGAACCTCAAG--
1 TTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
* *
16900999 ACGCTGAGGTG
65 ACGTTGAGGTA
* * *
16901010 TTTTCCATTTTTGTTCTTCAA
1 TTTTCAATTTCTGTTTTTCAA
16901031 TTTCTGTGTT
Statistics
Matches: 468, Mismatches: 59, Indels: 21
0.85 0.11 0.04
Matches are distributed among these distances:
71 38 0.08
73 181 0.39
74 38 0.08
75 173 0.37
76 38 0.08
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGTTGAGGTA
Found at i:16900706 original size:148 final size:147
Alignment explanation
Indices: 16900420--16901030 Score: 775
Period size: 148 Copynumber: 4.1 Consensus size: 147
16900410 AATTTTCGTT
* * * * *
16900420 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * * *
16900484 CGCTAAGGTAATTTCAATTTTTGTTTGTC-AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGC
66 CGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
*
16900548 CTCAAGACACGTTGAGGTA
131 CTCAAG--ACGCTGAGGTA
* * *
16900567 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTTAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* *
16900632 CGCTGAGGTAATTTCAATTTTTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
66 CGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
*
16900696 CTCAAGACACGTTGAGGTA
131 CTCAAG--ACGCTGAGGTA
* * * *
16900715 TTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * * *
16900780 CGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGCTGAA
66 CGCTGAGGTAATTTCAATTTCTGTTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAA
16900845 CCTCAAGACGCTGAGGTA
130 CCTCAAGACGCTGAGGTA
* * *
16900863 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * *
16900926 CGTTGAGGTATTTTCAATTTCTGTCTT-TCAAAAAAAATCAGCTCATATTGCGAAAGGTGAGTTG
66 CGCTGAGGTAATTTCAATTTCTGT-TTGTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTG
*
16900990 AACCTCAAGACGCTGAGGTG
128 AACCTCAAGACGCTGAGGTA
* * *
16901010 TTTTCCATTTTTGTTCTTCAA
1 TTTTCAATTTCTGTTTTTCAA
16901031 TTTCTGTGTT
Statistics
Matches: 418, Mismatches: 39, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
146 68 0.16
147 82 0.20
148 230 0.55
150 38 0.09
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (147 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
CTCAAGACGCTGAGGTA
Found at i:16900870 original size:221 final size:222
Alignment explanation
Indices: 16900440--16901030 Score: 924
Period size: 221 Copynumber: 2.7 Consensus size: 222
16900430 ATGTTTCTAA
* * * * * *
16900440 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTAAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
* * * * *
16900505 TGT-TTGT--CAAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 TGTCTT-TAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTA
* * *
16900567 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTTAGGACA
130 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGCTGAACCTCA-GACA
16900632 CGCTGAGGTAATTTCAATTTTTGTTTGTC
194 CGCTGAGGTAATTTCAATTTTTGTTTGTC
16900661 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
16900726 TGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTAT
66 TGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTAT
*
16900791 TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGCTGAACCTCA-AGACG
131 TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGCTGAACCTCAGACACG
16900855 CTGAGGTAATTTCAATTTTTGTTTGTC
196 CTGAGGTAATTTCAATTTTTGTTTGTC
16900882 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
* * *
16900947 TGTCTTTCAAAAAAAATCAGCTCATATTGCGAAAGGTGAGTTGAACCTCAAG--ACGCTGAGGTG
66 TGTCTTT-AAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTA
* * *
16901010 TTTTCCATTTTTGTTCTTCAA
130 TTTTCAATTTCTGTTTTTCAA
16901031 TTTCTGTGTT
Statistics
Matches: 345, Mismatches: 21, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
220 27 0.08
221 166 0.48
222 45 0.13
223 107 0.31
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (222 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
TGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTAT
TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGCTGAACCTCAGACACG
CTGAGGTAATTTCAATTTTTGTTTGTC
Found at i:16901260 original size:182 final size:179
Alignment explanation
Indices: 16900957--16901290 Score: 458
Period size: 182 Copynumber: 1.8 Consensus size: 179
16900947 TGTCTTTCAA
* * * * * *
16900957 AAAAAATCAGCTCATATTGCGAAAGGTGAGTTGAACCTCAAGACGCTGAGGTGTTTTCCATTTTT
1 AAAAAATCAACTCATATTGCGAAAGGTGAGTTCAACCCCAACACGCTGAGGTATTTTCAATTTTT
* * * *
16901022 GTTCTTCAATTTCTGTGTTTCAAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCT-TGA
66 GTTCTTCAATTTATGTGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA
*
16901086 CTCACACGCTGAGGTATTTTCAAATTCTATTTTTCAAATTTTGTTTTTCC
131 -TCACACGCCGAGGTATTTTCAAATTCTATTTTTCAAATTTTGTTTTTCC
* *
16901136 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCCCAGGACACGCTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAAAGGTGAGTTCAACCCCA--ACACGCTGAGGTATTTTCAA-TT
* *
16901201 CTTTTTTTTTCAATTTATGT-TTGTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
63 -TTTGTTCTTCAATTTATGTGTT-TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
16901264 TCAGATCACACGCCGAGGTATTTTCAA
126 TCAGATCACACGCCGAGGTATTTTCAA
16901291 TTGATTTTTA
Statistics
Matches: 134, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
179 35 0.26
181 17 0.13
182 62 0.46
183 20 0.15
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (179 bp):
AAAAAATCAACTCATATTGCGAAAGGTGAGTTCAACCCCAACACGCTGAGGTATTTTCAATTTTT
GTTCTTCAATTTATGTGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA
TCACACGCCGAGGTATTTTCAAATTCTATTTTTCAAATTTTGTTTTTCC
Found at i:16901299 original size:91 final size:89
Alignment explanation
Indices: 16900936--16901292 Score: 372
Period size: 91 Copynumber: 4.0 Consensus size: 89
16900926 CGTTGAGGTA
* * *
16900936 TTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAAAGGTGAGTTGAACCTC--A-A
1 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACA
* * *
16900998 GACGCTGAGGTGTTTTCCATTTTT
66 CACGCTGAGGTATTTTCAATTTTT
* * * *
16901022 GTTCTTCAATTTCTGTGTTTCAAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCT-TGA
1 -TT-TTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA
*
16901086 CTCACACGCTGAGGTATTTTCAAATTCTAT
64 --CACACGCTGAGGTATTTTC-AATT-TTT
* * * * *
16901116 TTTTCAAATTT-TGTTTTTC-CAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCCCAG-G
1 TTTTC-AATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAC
16901178 ACACGCTGAGGTATTTTCAATTTCTTTTT
65 ACACGCTGAGGTATTTTCAA----TTTTT
*
16901207 TTTTCAATTTATGT-TTGTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT
1 TTTTCAATTTCTGTCTT-TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA-
*
16901270 CACACGCCGAGGTATTTTCAATT
64 CACACGCTGAGGTATTTTCAATT
16901293 GATTTTTATT
Statistics
Matches: 230, Mismatches: 22, Indels: 34
0.80 0.08 0.12
Matches are distributed among these distances:
87 2 0.01
88 55 0.24
89 21 0.09
90 7 0.03
91 85 0.37
92 29 0.13
93 29 0.13
94 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (89 bp):
TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACA
CACGCTGAGGTATTTTCAATTTTT
Found at i:16901374 original size:101 final size:102
Alignment explanation
Indices: 16901197--16901391 Score: 286
Period size: 101 Copynumber: 1.9 Consensus size: 102
16901187 GGTATTTTCA
*
16901197 ATTTCTTTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 ATTTCTTTTTTTTTCAATTTATGTTTGTC-AAAAAATCAACTCATATTACGAGAGGTGAGTTGAG
* *
16901262 CCTCAGATCACACGCCGAGGTATTTTCAATTGATTTTT
65 CCTCAGATCACACACCGACGTATTTTCAATTGATTTTT
* *
16901300 ATTTTTTTTTTTTTCAATTTATGCTTTG-C-AAAAATCAACTCATATTATGAGAGGTGAGTTGAG
1 ATTTCTTTTTTTTTCAATTTATG-TTTGTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAG
* * *
16901363 CCTCGGGTCACATACCGACGTATTTTCAA
65 CCTCAGATCACACACCGACGTATTTTCAA
16901392 AATCTGTTTT
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
101 56 0.67
103 23 0.28
104 4 0.05
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (102 bp):
ATTTCTTTTTTTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGC
CTCAGATCACACACCGACGTATTTTCAATTGATTTTT
Found at i:16901476 original size:87 final size:87
Alignment explanation
Indices: 16901329--16901527 Score: 206
Period size: 87 Copynumber: 2.3 Consensus size: 87
16901319 TATGCTTTGC
** * * *
16901329 AAAAATCAACTCATATTATGAGAGGTGAGTTGAGCCTCGGGTCACATACCGACGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAAGTAAGTTGAGCCTCGGCTCACATACCGACGTATTTTCAAAA
16901394 TCTGTTTTACAAAT-TTT-GTTTT
66 TCTGTTTT--AAATGTTTAGTTTT
* * * * * *
16901416 AAAAATCAACTCATATTGCGAGAAGTAAGTTGAGCCTTGGCTCACGTGCTGA-GCTGTTTTCAAT
1 AAAAATCAACTCATATTGCGAGAAGTAAGTTGAGCCTCGGCTCACATACCGACG-TATTTTCAAA
* *
16901480 TTCTGTTTTTAATGTTTAGTTTT
65 ATCTGTTTTAAATGTTTAGTTTT
* *
16901503 AAAGAGTCAATTCATATTGCGAGAA
1 AAA-AATCAACTCATATTGCGAGAA
16901528 ATGAGTTAAG
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
85 3 0.03
86 4 0.04
87 67 0.72
88 19 0.20
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAAGTAAGTTGAGCCTCGGCTCACATACCGACGTATTTTCAAAA
TCTGTTTTAAATGTTTAGTTTT
Found at i:16902207 original size:30 final size:30
Alignment explanation
Indices: 16902171--16902269 Score: 180
Period size: 30 Copynumber: 3.3 Consensus size: 30
16902161 CTAGCCTTTG
16902171 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
16902201 CCACCACCAACTCCACTAGCCACATTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
16902231 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
16902261 CCACCACCA
1 CCACCACCA
16902270 CTTGTACCTA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.26, C:0.51, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:16902854 original size:25 final size:26
Alignment explanation
Indices: 16902768--16902884 Score: 77
Period size: 25 Copynumber: 4.7 Consensus size: 26
16902758 ATATTTCTTA
* ** *
16902768 ATATTATATTATATATATATTTTTAAT
1 ATATTAT-GTATATATATATTAATACT
* * *
16902795 ATATTAGGTATAT-TCTA--AATTCT
1 ATATTATGTATATATATATTAATACT
*
16902818 ATATTACG--TATATATATT-ATACT
1 ATATTATGTATATATATATTAATACT
* *
16902841 ATTTTATGTATATATCT-TTAATACT
1 ATATTATGTATATATATATTAATACT
*
16902866 ATATTATTTATATATATAT
1 ATATTATGTATATATATAT
16902885 ATATTTTTTT
Statistics
Matches: 67, Mismatches: 16, Indels: 15
0.68 0.16 0.15
Matches are distributed among these distances:
21 3 0.04
22 3 0.04
23 19 0.28
24 2 0.03
25 28 0.42
26 6 0.09
27 6 0.09
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (26 bp):
ATATTATGTATATATATATTAATACT
Found at i:16907712 original size:30 final size:30
Alignment explanation
Indices: 16907676--16907736 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
16907666 ACCAAAATGC
16907676 CATTTTCTTAAAACACTAAAATTTCTCTTA
1 CATTTTCTTAAAACACTAAAATTTCTCTTA
16907706 CATTTTCTTAAAACACTAAAATTTCTCTTA
1 CATTTTCTTAAAACACTAAAATTTCTCTTA
16907736 C
1 C
16907737 TCTATGTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (30 bp):
CATTTTCTTAAAACACTAAAATTTCTCTTA
Found at i:16910354 original size:16 final size:17
Alignment explanation
Indices: 16910333--16910366 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
16910323 TTGAGTTTAG
16910333 AAAATT-ATTTAATTAA
1 AAAATTAATTTAATTAA
*
16910349 AAAATTAATTTATTTAA
1 AAAATTAATTTAATTAA
16910366 A
1 A
16910367 TTAATAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATTAATTTAATTAA
Found at i:16910361 original size:21 final size:23
Alignment explanation
Indices: 16910337--16910386 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
16910327 GTTTAGAAAA
*
16910337 TTATTT-AATTAAAAAATTA-AT
1 TTATTTAAATTAAAAAATAATAT
*
16910358 TTATTTAAATTAATAAATAATAT
1 TTATTTAAATTAAAAAATAATAT
16910381 TTATTT
1 TTATTT
16910387 TGAAAAGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.24
22 11 0.44
23 8 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TTATTTAAATTAAAAAATAATAT
Found at i:16910365 original size:17 final size:16
Alignment explanation
Indices: 16910328--16910366 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
16910318 TAGAATTGAG
*
16910328 TTTAGAAAATTATTTA
1 TTTAAAAAATTATTTA
*
16910344 ATTAAAAAATTAATTTA
1 TTTAAAAAATT-ATTTA
16910361 TTTAAA
1 TTTAAA
16910367 TTAATAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (16 bp):
TTTAAAAAATTATTTA
Found at i:16915123 original size:37 final size:36
Alignment explanation
Indices: 16915040--16915140 Score: 114
Period size: 37 Copynumber: 2.8 Consensus size: 36
16915030 ATCATAGTGG
* * * *
16915040 CATGCTTAACATGCGAATCAGAATA-AAAAATTTGA
1 CATGCTTAACATGCAAATCAGAACATCAAAATTTAA
*
16915075 CATGCTTAACATGCAAATCAGAACATCAGAATATTAA
1 CATGCTTAACATGCAAATCAGAACATCAAAAT-TTAA
* * *
16915112 CATGTTTAACATGTAAATTAGAACATCAA
1 CATGCTTAACATGCAAATCAGAACATCAA
16915141 TAACTCAATA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
35 23 0.42
36 4 0.07
37 28 0.51
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.27
Consensus pattern (36 bp):
CATGCTTAACATGCAAATCAGAACATCAAAATTTAA
Found at i:16918283 original size:40 final size:40
Alignment explanation
Indices: 16918228--16918449 Score: 187
Period size: 40 Copynumber: 5.5 Consensus size: 40
16918218 TTTTTCAAGC
* * *
16918228 TGTGTATCAGAAAAGCTCCCATGTGAGATTATGGATAAAT
1 TGTGTATCAGCAAAGCTCCCTTGTGAGATTATGGATAAGT
** * *
16918268 TGTGTATCAGCAAAGCTTTCTTGTGAGTTTATGGATAAGC
1 TGTGTATCAGCAAAGCTCCCTTGTGAGATTATGGATAAGT
* *
16918308 TGTGTATCAGCAAAGTTCCCTTGTGAGCTTATGGATAAGT
1 TGTGTATCAGCAAAGCTCCCTTGTGAGATTATGGATAAGT
* * * * * *
16918348 TGTGTATTAGCACAGCTCCCCTGTGAG-CTAAGGACAAGT
1 TGTGTATCAGCAAAGCTCCCTTGTGAGATTATGGATAAGT
* * *** * *
16918387 TGTGCATCA-AAGAAGCTCCCCACATGAGCTTAAGTGATGAAGT
1 TGTGTATCAGCA-AAGCT-CCCTTGTGAGATTATG-GAT-AAGT
*
16918430 TGTGTATCAGTAAAGCTCCC
1 TGTGTATCAGCAAAGCTCCC
16918450 CATACGACTT
Statistics
Matches: 146, Mismatches: 30, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
38 1 0.01
39 20 0.14
40 98 0.67
41 4 0.03
42 5 0.03
43 17 0.12
44 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (40 bp):
TGTGTATCAGCAAAGCTCCCTTGTGAGATTATGGATAAGT
Found at i:16918373 original size:80 final size:80
Alignment explanation
Indices: 16918224--16918450 Score: 215
Period size: 80 Copynumber: 2.8 Consensus size: 80
16918214 ATAATTTTTC
** *
16918224 AAGCTGTGTATCAGAAAAGCTCCCATGTGAGATTATGGATAAATTGTGTATCAGCAAAGCTTTCT
1 AAGCTGTGTATCAGAAAAGCTCCCATGTGAGATTATGGATAAATTGTGTATCAGCAAAGCTCCCC
16918289 TGTGAGTTTATGGAT
66 TGTGAGTTTATGGAT
* * * * * * *
16918304 AAGCTGTGTATCAGCAAAGTTCCCTTGTGAGCTTATGGATAAGTTGTGTATTAGCACAGCTCCCC
1 AAGCTGTGTATCAGAAAAGCTCCCATGTGAGATTATGGATAAATTGTGTATCAGCAAAGCTCCCC
* * *
16918369 TGTGAG-CTAAGGAC
66 TGTGAGTTTATGGAT
* * ** * * * *
16918383 AAGTTGTGCATCA-AAGAAGCTCCCCACATGAGCTTAAGTGATGAAGTTGTGTATCAGTAAAGCT
1 AAGCTGTGTATCAGAA-AAGCT-CCCATGTGAGATTATG-GAT-AAATTGTGTATCAGCAAAGCT
16918447 CCCC
62 CCCC
16918451 ATACGACTTT
Statistics
Matches: 119, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
78 1 0.01
79 20 0.17
80 73 0.61
81 3 0.03
82 22 0.18
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (80 bp):
AAGCTGTGTATCAGAAAAGCTCCCATGTGAGATTATGGATAAATTGTGTATCAGCAAAGCTCCCC
TGTGAGTTTATGGAT
Found at i:16920836 original size:21 final size:21
Alignment explanation
Indices: 16920810--16920851 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
16920800 GTGGGAAACA
*
16920810 ATGGGCAAACCTTAGGTGATG
1 ATGGGCAAACCTCAGGTGATG
16920831 ATGGGCAAACCTCAGGTGATG
1 ATGGGCAAACCTCAGGTGATG
16920852 CTGAGTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.33, T:0.21
Consensus pattern (21 bp):
ATGGGCAAACCTCAGGTGATG
Found at i:16925730 original size:40 final size:41
Alignment explanation
Indices: 16925686--16925837 Score: 181
Period size: 40 Copynumber: 3.8 Consensus size: 41
16925676 GTTATAATAG
16925686 CTCGCACAAATGCCTTCGGGA-CTTA-ACCTGGATTTGGGAA
1 CTCGCACAAATGCCTTCGGGATCTTAGACC-GGATTTGGGAA
*
16925726 CTCGCACAAATGCCTTC-GGATCTTAGTCCGGATTTGGGAA
1 CTCGCACAAATGCCTTCGGGATCTTAGACCGGATTTGGGAA
* * **
16925766 CTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCA
1 CTCGCACAAATGCCTTCGGGATCTTAGACCGGATTTGGGAA
* *
16925806 CTTAGCACAAA-GCCTTCGGGA-CTTAGCCCGGA
1 C-TCGCACAAATGCCTTCGGGATCTTAGACCGGA
16925838 CATCATTCGA
Statistics
Matches: 102, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
39 3 0.03
40 86 0.84
41 13 0.13
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (41 bp):
CTCGCACAAATGCCTTCGGGATCTTAGACCGGATTTGGGAA
Found at i:16931533 original size:14 final size:14
Alignment explanation
Indices: 16931497--16931535 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
16931487 TTGTTTCACT
*
16931497 GAAAATGACTTCCA
1 GAAAATGATTTCCA
*
16931511 GAAAATGATTTCTA
1 GAAAATGATTTCCA
16931525 GAAAATGATTT
1 GAAAATGATTT
16931536 ACTTTTCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (14 bp):
GAAAATGATTTCCA
Found at i:16932110 original size:20 final size:22
Alignment explanation
Indices: 16932081--16932141 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
16932071 AATAAAATTG
*
16932081 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
16932101 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
16932123 TATTAATAATTTATTATTT
1 AAATAATAAATTA-TATTT
16932142 GAATAAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.26
21 2 0.06
22 18 0.53
23 5 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:16935007 original size:16 final size:16
Alignment explanation
Indices: 16934986--16935030 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
16934976 ATTTAGTTTA
16934986 AAAAAATTAAATTTTT
1 AAAAAATTAAATTTTT
*
16935002 AAAAAATATAAA-TATT
1 AAAAAAT-TAAATTTTT
16935018 -AAAAATTAAATTT
1 AAAAAATTAAATTT
16935031 CTCGTTATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 4 0.16
15 7 0.28
16 10 0.40
17 4 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAAAATTAAATTTTT
Found at i:16940298 original size:23 final size:22
Alignment explanation
Indices: 16940266--16940309 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
16940256 AACGAATCCA
16940266 ATTCAACATATTT-TCAAGATAG
1 ATTCAACATATTTAT-AAGATAG
16940288 ATTCATACATATTTATAAGATA
1 ATTCA-ACATATTTATAAGATA
16940310 ACCTCATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 14 0.70
24 1 0.05
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (22 bp):
ATTCAACATATTTATAAGATAG
Found at i:16949147 original size:25 final size:25
Alignment explanation
Indices: 16949119--16949167 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
16949109 AACCCTCTCT
*
16949119 TGAGCCATATAACGGGAAGCTTATG
1 TGAGCCATATAACGAGAAGCTTATG
*
16949144 TGAGCCATGTAACGAGAAGCTTAT
1 TGAGCCATATAACGAGAAGCTTAT
16949168 TCGGGCTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (25 bp):
TGAGCCATATAACGAGAAGCTTATG
Found at i:16949251 original size:23 final size:23
Alignment explanation
Indices: 16949225--16949269 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
16949215 TGAAGAACCA
16949225 TATCGAAAAGCTCACAAAGAGCT
1 TATCGAAAAGCTCACAAAGAGCT
** *
16949248 TATCGGGAAGTTCACAAAGAGC
1 TATCGAAAAGCTCACAAAGAGC
16949270 CATGCAACGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (23 bp):
TATCGAAAAGCTCACAAAGAGCT
Found at i:16960881 original size:19 final size:19
Alignment explanation
Indices: 16960857--16960896 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
16960847 TATTTAAATA
*
16960857 TATTATTTATTATAAAT-TT
1 TATTATTAATTA-AAATATT
16960876 TATTATTAATTAAAATATT
1 TATTATTAATTAAAATATT
16960895 TA
1 TA
16960897 ATTTTAGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTATTAATTAAAATATT
Found at i:16960939 original size:4 final size:4
Alignment explanation
Indices: 16960930--16960954 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
16960920 TATTTATATG
16960930 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
16960955 GAAATAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:16967085 original size:15 final size:14
Alignment explanation
Indices: 16967035--16967096 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 14
16967025 TATTATAAAT
16967035 TTCTTTTCTTTTTTAC
1 TTCTTTT-TTTTTT-C
16967051 TTCTATTATGTTTTCCTTC
1 TTCT-TT-T-TTTT--TTC
16967070 TCTCTTTTTTTTTTC
1 T-TCTTTTTTTTTTC
16967085 TTCTTTTTTTTT
1 TTCTTTTTTTTT
16967097 CATTTGATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
14 11 0.28
15 4 0.10
16 4 0.10
17 6 0.15
18 6 0.15
19 4 0.10
20 5 0.12
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.76
Consensus pattern (14 bp):
TTCTTTTTTTTTTC
Found at i:16967095 original size:16 final size:16
Alignment explanation
Indices: 16967035--16967096 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
16967025 TATTATAAAT
*
16967035 TTCTTTTCTTTTTTAC
1 TTCTTTTTTTTTTTAC
* * * *
16967051 TTCTATTATGTTTTCC
1 TTCTTTTTTTTTTTAC
*
16967067 TTCTCTCTTTTTTTTTTC
1 TTCT-T-TTTTTTTTTAC
16967085 TTCTTTTTTTTT
1 TTCTTTTTTTTT
16967097 CATTTGATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
16 23 0.64
17 1 0.03
18 12 0.33
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.76
Consensus pattern (16 bp):
TTCTTTTTTTTTTTAC
Found at i:16967772 original size:21 final size:20
Alignment explanation
Indices: 16967713--16967780 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 20
16967703 AAATAAAAGA
16967713 GAAAAACTTAAGGTTTTATAGG
1 GAAAAACTT-AGGTTTTATA-G
*
16967735 GAATTAAC-T-GGTTTTTATAG
1 GAA-AAACTTAGG-TTTTATAG
*
16967755 GAAAAACTTAGGTCTTTACAG
1 GAAAAACTTAGGT-TTTATAG
16967776 GAAAA
1 GAAAA
16967781 GTCATTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
19 3 0.08
20 8 0.21
21 20 0.53
22 4 0.11
23 3 0.08
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (20 bp):
GAAAAACTTAGGTTTTATAG
Found at i:16967802 original size:9 final size:9
Alignment explanation
Indices: 16967785--16967824 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
16967775 GGAAAAGTCA
16967785 TTTTT-ATC
1 TTTTTAATC
16967793 TTTTTAATC
1 TTTTTAATC
*
16967802 TTTTTAATT
1 TTTTTAATC
16967811 TTTTTAAT-
1 TTTTTAATC
16967819 TTTTTA
1 TTTTTA
16967825 TTTTCTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 11 0.37
9 19 0.63
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTTAATC
Found at i:16967806 original size:18 final size:17
Alignment explanation
Indices: 16967785--16967824 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
16967775 GGAAAAGTCA
16967785 TTTTT-ATCTTTTTAAT
1 TTTTTAATCTTTTTAAT
*
16967801 CTTTTTAATTTTTTTAAT
1 -TTTTTAATCTTTTTAAT
16967819 TTTTTA
1 TTTTTA
16967825 TTTTCTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTAATCTTTTTAAT
Found at i:16971048 original size:16 final size:16
Alignment explanation
Indices: 16971008--16971049 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
16970998 CCATTGGGTC
*
16971008 AAGACTAAAAATTACA
1 AAGACTAAAAAGTACA
*
16971024 AA-ATTTAAAAAGTACA
1 AAGA-CTAAAAAGTACA
16971040 AAGACTAAAA
1 AAGACTAAAA
16971050 TTAATCAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
15 1 0.05
16 19 0.90
17 1 0.05
ACGTcount: A:0.64, C:0.10, G:0.07, T:0.19
Consensus pattern (16 bp):
AAGACTAAAAAGTACA
Found at i:16974987 original size:63 final size:63
Alignment explanation
Indices: 16974910--16975034 Score: 241
Period size: 63 Copynumber: 2.0 Consensus size: 63
16974900 AGAGAATAAA
*
16974910 ATGAACTGTATTCATGCAAGATTAATTATCAGAAATTCCTAAAAGATACAGTTAGTTTCTTGC
1 ATGAACTGTATTCATGCAAGATTAATTATCAGAAATTCCTAAAACATACAGTTAGTTTCTTGC
16974973 ATGAACTGTATTCATGCAAGATTAATTATCAGAAATTCCTAAAACATACAGTTAGTTTCTTG
1 ATGAACTGTATTCATGCAAGATTAATTATCAGAAATTCCTAAAACATACAGTTAGTTTCTTG
16975035 GATTGCAATT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (63 bp):
ATGAACTGTATTCATGCAAGATTAATTATCAGAAATTCCTAAAACATACAGTTAGTTTCTTGC
Found at i:16976367 original size:23 final size:22
Alignment explanation
Indices: 16976341--16976390 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
16976331 ATATAAATTT
16976341 TAAAATC-TAAAAACTAAAACAA
1 TAAAATCATAAAAA-TAAAACAA
* *
16976363 CTAAATTCATAAAAATAAAATAA
1 -TAAAATCATAAAAATAAAACAA
16976386 TAAAA
1 TAAAA
16976391 ATTTTAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 4 0.17
23 13 0.57
24 6 0.26
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.22
Consensus pattern (22 bp):
TAAAATCATAAAAATAAAACAA
Found at i:16977057 original size:29 final size:31
Alignment explanation
Indices: 16977007--16977066 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
16976997 TTTATGTTAA
*
16977007 TTATAAATATAATTATAATTATATTATTTTT
1 TTATAAATATAATTATAATTATATTAATTTT
*
16977038 TTATAAATA-ACTTAT-ATTATATTAATTTT
1 TTATAAATATAATTATAATTATATTAATTTT
16977067 AAAAATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 13 0.48
30 5 0.19
31 9 0.33
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (31 bp):
TTATAAATATAATTATAATTATATTAATTTT
Found at i:16977320 original size:88 final size:88
Alignment explanation
Indices: 16977152--16977327 Score: 207
Period size: 87 Copynumber: 2.0 Consensus size: 88
16977142 TAAAAAATTT
* * * *
16977152 TTAAATTTTTTTAAAAAAAGTAATTAAGTCCTTGTTTTTTTTCACTCAATTGGGTACTTAAACTT
1 TTAAAATTTTTTAAAAAAAGCAATTAAGTCCTTGTTTTTTTGCACTCAATTAGGTACTTAAACTT
**
16977217 TTAAAATACATAAAAAAAAGCCC
66 CCAAAATACATAAAAAAAAGCCC
* *
16977240 TTAAAATTTTTTAAATAAAGCAATTAAGGTCC-T-TTTTTTTGCACTCAATTAGGTACTTGAA-T
1 TTAAAATTTTTTAAAAAAAGCAATTAA-GTCCTTGTTTTTTTGCACTCAATTAGGTACTTAAACT
** *
16977302 TGCCAAAATGTAT-CAAAAAAGCCC
65 T-CCAAAATACATAAAAAAAAGCCC
16977326 TT
1 TT
16977328 TCACTGTTAA
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
86 14 0.19
87 32 0.43
88 25 0.33
89 4 0.05
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (88 bp):
TTAAAATTTTTTAAAAAAAGCAATTAAGTCCTTGTTTTTTTGCACTCAATTAGGTACTTAAACTT
CCAAAATACATAAAAAAAAGCCC
Found at i:16977510 original size:20 final size:18
Alignment explanation
Indices: 16977485--16977526 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
16977475 ATATAATTAT
16977485 AAATCAGAACAAAATTATAA
1 AAATCA-AA-AAAATTATAA
*
16977505 AAATCATAAAAATTATAA
1 AAATCAAAAAAATTATAA
16977523 AAAT
1 AAAT
16977527 TTATTAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 1 0.05
20 6 0.29
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (18 bp):
AAATCAAAAAAATTATAA
Found at i:16977513 original size:9 final size:9
Alignment explanation
Indices: 16977495--16977573 Score: 61
Period size: 9 Copynumber: 8.3 Consensus size: 9
16977485 AAATCAGAAC
16977495 AAAATTATA
1 AAAATTATA
*
16977504 AAAATCATA
1 AAAATTATA
16977513 AAAATTATA
1 AAAATTATA
16977522 AAAATTTATTA
1 AAAA-TTA-TA
**
16977533 AAAGCGTA-A
1 AAA-ATTATA
16977542 AAAATTATA
1 AAAATTATA
* *
16977551 AAATATAGAAA
1 AAA-AT-TATA
16977562 AAAATTATA
1 AAAATTATA
16977571 AAA
1 AAA
16977574 TTTTATAAAG
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
8 2 0.04
9 33 0.61
10 7 0.13
11 12 0.22
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.28
Consensus pattern (9 bp):
AAAATTATA
Found at i:16977525 original size:10 final size:10
Alignment explanation
Indices: 16977495--16977604 Score: 52
Period size: 10 Copynumber: 11.4 Consensus size: 10
16977485 AAATCAGAAC
16977495 AAAATTAT-A
1 AAAATTATAA
*
16977504 AAAATCAT-A
1 AAAATTATAA
16977513 AAAATTATAA
1 AAAATTATAA
* *
16977523 AAATTTAT-T
1 AAAATTATAA
***
16977532 AAAAGCGTAA
1 AAAATTATAA
16977542 AAAATTATAA
1 AAAATTATAA
* *
16977552 AATA-TAGAAA
1 AAAATTA-TAA
16977562 AAAATTAT--
1 AAAATTATAA
* *
16977570 AAAATTTTAT
1 AAAATTATAA
* *
16977580 AAAGTCATAA
1 AAAATTATAA
16977590 GAAAATTATAA
1 -AAAATTATAA
16977601 AAAA
1 AAAA
16977605 GGAAAGAAAT
Statistics
Matches: 71, Mismatches: 23, Indels: 13
0.66 0.21 0.12
Matches are distributed among these distances:
8 7 0.10
9 21 0.30
10 33 0.46
11 10 0.14
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.29
Consensus pattern (10 bp):
AAAATTATAA
Found at i:16977573 original size:29 final size:28
Alignment explanation
Indices: 16977541--16977603 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
16977531 TAAAAGCGTA
16977541 AAAAATTATAAAAT-ATAGAAAAAAATTAT
1 AAAAATTATAAAATCAT--AAAAAAATTAT
* * *
16977570 AAAATTTTATAAAGTCATAAGAAAATTAT
1 AAAA-ATTATAAAATCATAAAAAAATTAT
16977599 AAAAA
1 AAAAA
16977604 AGGAAAGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
29 18 0.64
30 8 0.29
31 2 0.07
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (28 bp):
AAAAATTATAAAATCATAAAAAAATTAT
Found at i:16977895 original size:26 final size:25
Alignment explanation
Indices: 16977844--16977897 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
16977834 TTTTTTTCTA
*
16977844 ATTTTTAGTAAATTTAAAATATTTT
1 ATTTTTAGTAAATTTAAAATACTTT
*
16977869 ATTTTTATTAAAATTTAATAA-ACTTT
1 ATTTTTAGT-AAATTTAA-AATACTTT
16977895 ATT
1 ATT
16977898 GTTTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 8 0.32
26 15 0.60
27 2 0.08
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (25 bp):
ATTTTTAGTAAATTTAAAATACTTT
Found at i:16979154 original size:25 final size:25
Alignment explanation
Indices: 16979104--16979154 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
16979094 CAGATATGAT
* *
16979104 AAAAAATTATAATAAGATTGTTCAA
1 AAAAAATTATAATAAGACTGTGCAA
16979129 AAAAAATCTATAATAA-ACTGTGCAA
1 AAAAAAT-TATAATAAGACTGTGCAA
16979154 A
1 A
16979155 TACTCTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.27
Consensus pattern (25 bp):
AAAAAATTATAATAAGACTGTGCAA
Found at i:16979794 original size:35 final size:35
Alignment explanation
Indices: 16979748--16979818 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
16979738 AGATTTGATC
16979748 TTCCAGGTGTTTTATTACAAGAAGATCTCTGCTAT
1 TTCCAGGTGTTTTATTACAAGAAGATCTCTGCTAT
16979783 TTCCAGGTGTTTTATTACAAGAAGATCTCTGCTAT
1 TTCCAGGTGTTTTATTACAAGAAGATCTCTGCTAT
16979818 T
1 T
16979819 ATACTCTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (35 bp):
TTCCAGGTGTTTTATTACAAGAAGATCTCTGCTAT
Found at i:16984810 original size:23 final size:23
Alignment explanation
Indices: 16984784--16984827 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
16984774 TAAGGACTAG
*
16984784 ATTATA-AATAGGGTAAAAGTTGA
1 ATTATAGAATAGAG-AAAAGTTGA
16984807 ATTATAGAATAGAGAAAAGTT
1 ATTATAGAATAGAGAAAAGTT
16984828 AAGGGACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (23 bp):
ATTATAGAATAGAGAAAAGTTGA
Found at i:16985044 original size:21 final size:20
Alignment explanation
Indices: 16984997--16985045 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
16984987 TAAAACAAAT
*
16984997 AAAGTAAATAAAGAATAAACA
1 AAAG-AAATAAAGAATAAAAA
16985018 AAAGAAA-AAAGAATAGAAAA
1 AAAGAAATAAAGAATA-AAAA
16985038 GAAAGAAA
1 -AAAGAAA
16985046 GAGGGGACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 8 0.32
20 6 0.24
21 11 0.44
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.08
Consensus pattern (20 bp):
AAAGAAATAAAGAATAAAAA
Found at i:16985095 original size:12 final size:12
Alignment explanation
Indices: 16985078--16985102 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16985068 AAACAAAGAA
16985078 AGAAAGAAAAAG
1 AGAAAGAAAAAG
16985090 AGAAAGAAAAAG
1 AGAAAGAAAAAG
16985102 A
1 A
16985103 AGGAGAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAAG
Found at i:16994162 original size:27 final size:28
Alignment explanation
Indices: 16994127--16994196 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
16994117 ATAGTGAGTC
*
16994127 CGCATACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
16994154 TGCACACTTATTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
16994182 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16994197 GTACAAATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
27 19 0.54
28 16 0.46
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:17004101 original size:55 final size:55
Alignment explanation
Indices: 17003999--17004104 Score: 158
Period size: 55 Copynumber: 1.9 Consensus size: 55
17003989 ATGGGCTAGC
*
17003999 CACACGGGCGTGTACCATGGCCGTGTCTTAAAGTCAGTATAGTACACGGGCAGGT
1 CACACGGGCGTGTACCATGGCCGTGTCTTAAAGTCAGTATAGCACACGGGCAGGT
* * * * *
17004054 CACACGGGCGTGTGCCATGGCCGTGTGTTGAAGTCAGTGTTGCACACGGGC
1 CACACGGGCGTGTACCATGGCCGTGTCTTAAAGTCAGTATAGCACACGGGC
17004105 TAAGGACATG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.20, C:0.25, G:0.34, T:0.22
Consensus pattern (55 bp):
CACACGGGCGTGTACCATGGCCGTGTCTTAAAGTCAGTATAGCACACGGGCAGGT
Found at i:17008262 original size:37 final size:37
Alignment explanation
Indices: 17008206--17008308 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
17008196 CGAATAGTCC
* * *
17008206 CCACACGTAGTTATTGGGTCTTACCTGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
17008243 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
17008280 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
17008309 ATATATTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:17008510 original size:48 final size:48
Alignment explanation
Indices: 17008449--17008785 Score: 584
Period size: 48 Copynumber: 6.9 Consensus size: 48
17008439 ATATACACAC
* *
17008449 ATCTCCTACATATTTCACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
17008497 ATCTCATATATATTTCACACTAGCCACTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
17008545 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
17008593 ATCTCATACATATTTCACACTAGCCATTCGGCTTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATT---C---GGCTTTACCACATATACAT
17008647 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
17008695 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
17008743 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATA
17008786 CATATATATT
Statistics
Matches: 277, Mismatches: 6, Indels: 12
0.94 0.02 0.04
Matches are distributed among these distances:
48 228 0.82
51 2 0.01
54 47 0.17
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:17008714 original size:150 final size:150
Alignment explanation
Indices: 17008449--17008777 Score: 589
Period size: 150 Copynumber: 2.2 Consensus size: 150
17008439 ATATACACAC
* *
17008449 ATCTCCTACATATTTCACACTAGCCA------TTTGGCTTTACCACATATACATATCTCATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTGGCTTTACCACATATACATATCTCATACAT
17008508 ATTTCACACTAGCCACTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATT
66 ATTTCACACTAGCCACTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATT
17008573 CGGCTTTACCACATATACAT
131 CGGCTTTACCACATATACAT
17008593 ATCTCATACATATTTCACACTAGCCATTCGGCTTTGGCTTTACCACATATACATATCTCATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTGGCTTTACCACATATACATATCTCATACAT
*
17008658 ATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATT
66 ATTTCACACTAGCCACTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATT
17008723 CGGCTTTACCACATATACAT
131 CGGCTTTACCACATATACAT
17008743 ATCTCATACATATTTCACACTAGCCATTCGGCTTT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTT
17008778 ACCACATACA
Statistics
Matches: 176, Mismatches: 3, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
144 25 0.14
150 151 0.86
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (150 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTGGCTTTACCACATATACATATCTCATACAT
ATTTCACACTAGCCACTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATT
CGGCTTTACCACATATACAT
Found at i:17012038 original size:143 final size:143
Alignment explanation
Indices: 17011830--17012267 Score: 858
Period size: 143 Copynumber: 3.1 Consensus size: 143
17011820 TGAGTTAAAT
*
17011830 TTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
17011895 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
17011960 GTGTGCATGAGTA
131 GTGTGCATGAGTA
*
17011973 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAACATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
17012038 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
17012103 GTGTGCATGAGTA
131 GTGTGCATGAGTA
17012116 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
17012181 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
17012246 GTGTGCATGAGTA
131 GTGTGCATGAGTA
17012259 TTCGGCCAT
1 TTCGGCCAT
17012268 ATGGGGTATA
Statistics
Matches: 292, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 292 1.00
ACGTcount: A:0.22, C:0.10, G:0.29, T:0.39
Consensus pattern (143 bp):
TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
GTGTGCATGAGTA
Found at i:17012783 original size:29 final size:29
Alignment explanation
Indices: 17012750--17012881 Score: 147
Period size: 29 Copynumber: 4.6 Consensus size: 29
17012740 GTGACGAGAT
*
17012750 TGGCACTAAGTGTGCGTGCTGGTAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
17012779 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
17012808 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** * ** *
17012837 TAACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
17012866 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
17012882 AGCTCGAAGG
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 88 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:17021533 original size:19 final size:21
Alignment explanation
Indices: 17021496--17021536 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
17021486 TCAAGATTAA
17021496 ATTAAATTAAATATTAAATATT
1 ATTAAATTAAATA-TAAATATT
17021518 ATTAAATT-AATA-AAATATT
1 ATTAAATTAAATATAAATATT
17021537 TATCTACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
21 4 0.21
22 8 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTAAATTAAATATAAATATT
Found at i:17022624 original size:39 final size:39
Alignment explanation
Indices: 17022581--17022698 Score: 164
Period size: 39 Copynumber: 3.0 Consensus size: 39
17022571 CCGGATTCCA
* *
17022581 TTCCAGCACGTAGCCTGCGGACTTCAAGTCTGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
17022620 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
* * * * * *
17022659 TCCCAGTATACAGCCTGCGGACCTCATGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
17022698 T
1 T
17022699 CCCAATATCA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
Found at i:17028465 original size:39 final size:39
Alignment explanation
Indices: 17028422--17028539 Score: 173
Period size: 39 Copynumber: 3.0 Consensus size: 39
17028412 CCAGATTCCA
*
17028422 TTCCAGCACGTAGCCTGCGGACTTCAAGTTTGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTTTGGATATAT
*
17028461 TTCCAGCACATAGCCTGCGGACTTCAAGTTCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTTTGGATATAT
* * * * *
17028500 TCCCAGCATACAGCCTGCGGACCTCATGTTTGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTTTGGATATAT
17028539 T
1 T
17028540 CCCAATATCA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACTTCAAGTTTGGATATAT
Found at i:17034004 original size:13 final size:13
Alignment explanation
Indices: 17033982--17034015 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
17033972 ATGTTTGGAA
17033982 ATGT-ATGTTTTT
1 ATGTAATGTTTTT
17033994 ATGTAATGTTTTT
1 ATGTAATGTTTTT
17034007 ACTGTAATG
1 A-TGTAATG
17034016 CACTGTAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.20
13 9 0.45
14 7 0.35
ACGTcount: A:0.24, C:0.03, G:0.18, T:0.56
Consensus pattern (13 bp):
ATGTAATGTTTTT
Found at i:17034006 original size:14 final size:14
Alignment explanation
Indices: 17033986--17034015 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
17033976 TTGGAAATGT
17033986 ATGTTTTTA-TGTA
1 ATGTTTTTACTGTA
17033999 ATGTTTTTACTGTA
1 ATGTTTTTACTGTA
17034013 ATG
1 ATG
17034016 CACTGTAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.23, C:0.03, G:0.17, T:0.57
Consensus pattern (14 bp):
ATGTTTTTACTGTA
Found at i:17035205 original size:27 final size:26
Alignment explanation
Indices: 17035175--17035252 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 26
17035165 ACGATCCCGG
* * *
17035175 TGGAGTACTCCGTGTTTATTTTTCTGA
1 TGGACTAC-CCGTGTTTATTGTCCTGA
*
17035202 TGGACTACCCTGTGTTTATTGTCCTGT
1 TGGACTACCC-GTGTTTATTGTCCTGA
17035229 TGGACTACCCCGTGTTTATTGTCC
1 TGGACTA-CCCGTGTTTATTGTCC
17035253 CAACGAACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.04
27 40 0.89
28 3 0.07
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.44
Consensus pattern (26 bp):
TGGACTACCCGTGTTTATTGTCCTGA
Found at i:17035262 original size:27 final size:27
Alignment explanation
Indices: 17035205--17035264 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
17035195 TTTCTGATGG
* **** *
17035205 ACTACCCTGTGTTTATTGTCCTGTTGG
1 ACTACCCCGTGTTTATTGTCCCAACGA
17035232 ACTACCCCGTGTTTATTGTCCCAACGA
1 ACTACCCCGTGTTTATTGTCCCAACGA
17035259 ACTACC
1 ACTACC
17035265 AAAGGATGCC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (27 bp):
ACTACCCCGTGTTTATTGTCCCAACGA
Found at i:17035391 original size:45 final size:45
Alignment explanation
Indices: 17035269--17035397 Score: 168
Period size: 45 Copynumber: 2.9 Consensus size: 45
17035259 ACTACCAAAG
* * * * *
17035269 GATGCCATAGCATCTTTCAGCTATGGTCTTAATAATATTTATCAT
1 GATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTTAACAT
* * *
17035314 GATGCCATAACATATTTTAGCTATGGTGTTACTCATTTTTAACAT
1 GATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTTAACAT
* *
17035359 GATGTCATAACATCTTTCAACTATGGTCTTACTCATTTT
1 GATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTT
17035398 AGGCATATAG
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 71 1.00
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (45 bp):
GATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTTAACAT
Found at i:17041511 original size:21 final size:21
Alignment explanation
Indices: 17041487--17041571 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
17041477 CGAAGACGCC
*
17041487 AACAGAAGCTTATAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
* * *
17041508 AACAGAAGCTCATGAGAGATT
1 AACAGAAGCTCATAAGAGCTG
* * * *
17041529 AACAGAAGCTCGTGAGTGCTT
1 AACAGAAGCTCATAAGAGCTG
*
17041550 AACAGAAGCTCATAAAAGCTG
1 AACAGAAGCTCATAAGAGCTG
17041571 A
1 A
17041572 TCCACCCAAA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTG
Found at i:17041804 original size:2 final size:2
Alignment explanation
Indices: 17041797--17041827 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
17041787 ACAATAGAAC
17041797 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17041828 CAATCATCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17058446 original size:30 final size:30
Alignment explanation
Indices: 17058393--17058550 Score: 202
Period size: 29 Copynumber: 5.4 Consensus size: 30
17058383 AGTGAATCCA
*
17058393 CACACTTAGTGTTATAT-ATTTTCAGCTCG
1 CACACTTAGTGCTATATAATTTTCAGCTCG
17058422 CACACTTAGTGCTATATAATTTTCAGCTCG
1 CACACTTAGTGCTATATAATTTTCAGCTCG
17058452 CACACTTAGTGCTATAT-ATTTTCAGCTCG
1 CACACTTAGTGCTATATAATTTTCAGCTCG
*
17058481 CACACTTAGTGCTATATAA---TCAAACTCG
1 CACACTTAGTGCTATATAATTTTC-AGCTCG
* * * *
17058509 CACACTTAGTGCTGTACAATTTTAAAC-CTG
1 CACACTTAGTGCTATATAATTTTCAGCTC-G
17058539 CACACTTAGTGC
1 CACACTTAGTGC
17058551 CAATCTTGTC
Statistics
Matches: 117, Mismatches: 5, Indels: 13
0.87 0.04 0.10
Matches are distributed among these distances:
27 2 0.02
28 22 0.19
29 46 0.39
30 46 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (30 bp):
CACACTTAGTGCTATATAATTTTCAGCTCG
Found at i:17058468 original size:59 final size:57
Alignment explanation
Indices: 17058393--17058521 Score: 206
Period size: 59 Copynumber: 2.2 Consensus size: 57
17058383 AGTGAATCCA
* *
17058393 CACACTTAGTGTTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCTCG
1 CACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACTCG
17058452 CACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACTCG
1 CACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACTCG
17058509 CACACTTAGTGCT
1 CACACTTAGTGCT
17058522 GTACAATTTT
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
56 2 0.03
57 18 0.27
59 47 0.70
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (57 bp):
CACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACTCG
Found at i:17064382 original size:40 final size:40
Alignment explanation
Indices: 17064299--17064518 Score: 259
Period size: 40 Copynumber: 5.5 Consensus size: 40
17064289 ACCCAAGTAT
** * *
17064299 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
17064337 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
17064377 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
17064417 CTTCGGGT-TTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
17064456 CTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
*
17064497 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
17064519 TATTCGAATA
Statistics
Matches: 153, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 49 0.32
40 63 0.41
41 29 0.19
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:17064432 original size:79 final size:78
Alignment explanation
Indices: 17064299--17064518 Score: 255
Period size: 79 Copynumber: 2.8 Consensus size: 78
17064289 ACCCAAGTAT
* ** * * * *
17064299 CTTCGGGATTTAGCCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGTC
1 CTTCGGGACTTAGCCGGATATAGTCACTAGCACAAAAGCCTTCGGGT-TTAGCCCGGATATAGTA
*
17064363 ACTAGCATAAATGC
65 ACTAGCACAAATGC
* * *
17064377 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTTTGGCCCGGATATAGTA
1 CTTCGGGACTTAG-CCGGATATAGTCACTAGCACAAAAGCCTTCGGGTTTAGCCCGGATATAGTA
*
17064442 ACTCGCACAAATGC
65 ACTAGCACAAATGC
*
17064456 CTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAGTCAC-TAGCACAAAAGCCTTCGGG-TTTAGCCCGGATAT
17064519 TATTCGAATA
Statistics
Matches: 121, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 15 0.12
79 64 0.53
80 30 0.25
81 12 0.10
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (78 bp):
CTTCGGGACTTAGCCGGATATAGTCACTAGCACAAAAGCCTTCGGGTTTAGCCCGGATATAGTAA
CTAGCACAAATGC
Found at i:17069549 original size:16 final size:16
Alignment explanation
Indices: 17069530--17069562 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
17069520 AGTATGACAC
17069530 ATGGATTTCTTATTTA
1 ATGGATTTCTTATTTA
*
17069546 ATGGATTTCTTGTTTA
1 ATGGATTTCTTATTTA
17069562 A
1 A
17069563 GTTTTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.15, T:0.55
Consensus pattern (16 bp):
ATGGATTTCTTATTTA
Found at i:17070547 original size:17 final size:17
Alignment explanation
Indices: 17070498--17070547 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
17070488 TGTTATAATG
* *
17070498 TATGCTAATTAGATTCT
1 TATGTTAATTAGATTTT
*
17070515 TAT-TT-ATAAGGATTTT
1 TATGTTAATTA-GATTTT
17070531 TATGTTAATTAGATTTT
1 TATGTTAATTAGATTTT
17070548 ATTATAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
15 3 0.12
16 9 0.35
17 11 0.42
18 3 0.12
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54
Consensus pattern (17 bp):
TATGTTAATTAGATTTT
Found at i:17070759 original size:29 final size:29
Alignment explanation
Indices: 17070726--17070783 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
17070716 ACATTATTTT
**
17070726 TATAAAATAAAATATTGAATTACAAAATA
1 TATAAAATAAAATATAAAATTACAAAATA
* *
17070755 TATAAAATAAATTATAAAATTATAAAATA
1 TATAAAATAAAATATAAAATTACAAAATA
17070784 ATTTAATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (29 bp):
TATAAAATAAAATATAAAATTACAAAATA
Found at i:17070780 original size:20 final size:21
Alignment explanation
Indices: 17070743--17070784 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
17070733 TAAAATATTG
17070743 AATTACAAAATATATAAAATA
1 AATTACAAAATATATAAAATA
*
17070764 AATTATAAAAT-TATAAAATA
1 AATTACAAAATATATAAAATA
17070784 A
1 A
17070785 TTTAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
AATTACAAAATATATAAAATA
Found at i:17081946 original size:26 final size:26
Alignment explanation
Indices: 17081892--17081954 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
17081882 AGAACCGAAT
* *
17081892 TATACATAAATAAATTTAAAAATATA
1 TATACATAAAAAAATTTAAAAAGATA
*
17081918 TATATATAAAAAAATTTAAAAGAGAATA
1 TATACATAAAAAAATTTAAAA-AG-ATA
*
17081946 TTTACATAA
1 TATACATAA
17081955 CAGATTTGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 19 0.63
27 1 0.03
28 10 0.33
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (26 bp):
TATACATAAAAAAATTTAAAAAGATA
Found at i:17082180 original size:3 final size:3
Alignment explanation
Indices: 17082172--17082221 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
17082162 AATTGAAACA
17082172 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17082220 AA
1 AA
17082222 AGAAGTAATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17083792 original size:45 final size:45
Alignment explanation
Indices: 17083697--17083793 Score: 117
Period size: 45 Copynumber: 2.2 Consensus size: 45
17083687 GGTGGCTAAA
* ** *
17083697 ATCTACTCCATAGCCGATACATGGAGATAAGACTTGCCATTTCCG
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTTAACATTTCAG
*
17083742 ATCTGCTCCATAGCCGATATATGGAGATAAGATCTGTAAC-TTTCAG
1 ATCTGCTCCATAGCCGATACATGGAGATAAGA-CT-TAACATTTCAG
17083788 -TCTGCT
1 ATCTGCT
17083794 TCTTGCAACT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
45 36 0.80
46 7 0.16
47 2 0.04
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (45 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGACTTAACATTTCAG
Found at i:17083933 original size:176 final size:176
Alignment explanation
Indices: 17083444--17084215 Score: 1127
Period size: 176 Copynumber: 4.4 Consensus size: 176
17083434 TAGTCTTACA
** * * * * * *
17083444 GCAACTTCAAGAAGATAAGGTTTGTGACTTCAACCTGCTCCACTGCAATTTCAGGGAGACAAAGT
1 GCAACTTCAAGAAGATAAGACTTGTGTCTTCAACCTGCT-CTCTGCAACTTCAGAGAGATAAGGT
*
17083509 CGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCA-CCATCTTCGATCTGCTC
65 TGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACT-AGCCATCTTCGATCTGCTC
* *
17083573 CATAGCTGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCT
129 CATAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTCTGCTTCCT
* * * * * * *
17083621 GCAACTTCAGGAAGATAAGACCTATGTCTTCAACCTGCGCTCTTGCTACCTCAGAGAGATAAGGC
1 GCAACTTCAAGAAGATAAGACTTGTGTCTTCAACCTGCTCTC-TGCAACTTCAGAGAGATAAGGT
* *
17083686 TGGTGGCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTTGCCAT-TTCCGATCTGCTC
65 TGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTAGCCATCTT-CGATCTGCTC
* * *
17083750 CATAGCCGATATATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCTT
129 CATAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTCTGCTTCCT
*
17083798 GCAACTTCAAGAAGATAAGACTAGTGTCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGGTT
1 GCAACTTCAAGAAGATAAGACTTGTGTCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGGTT
* *
17083863 GGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTAGCCATCTTTGATCTACTCCA
66 GGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTAGCCATCTTCGATCTGCTCCA
*
17083928 TAGCCGATACATGGAGATAAGATCTGCAATTTTCAGTCTGCTTCCT
131 TAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTCTGCTTCCT
* * *
17083974 GCAACTTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAATTTCAGAAAGATAAGGTT
1 GCAACTTCAAGAAGATAAGACTTGTGTCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGGTT
* *
17084039 GGTGGCTAAAATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCA
66 GGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTAGCCATCTTCGATCTGCTCCA
*
17084104 TAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTTTGCTTCCT
131 TAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTCTGCTTCCT
* * * * *
17084150 GCAACTTCAAGAAGATAAGACTTGCGTATT-AAGCCTGCTCCACCGCAACTTCAGGGAGATAAGG
1 GCAACTTCAAGAAGATAAGACTTGTGTCTTCAA-CCTGCT-CTCTGCAACTTCAGAGAGATAAGG
17084214 TT
64 TT
17084216 TGTAATCTTC
Statistics
Matches: 534, Mismatches: 55, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
175 2 0.00
176 323 0.60
177 209 0.39
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.27
Consensus pattern (176 bp):
GCAACTTCAAGAAGATAAGACTTGTGTCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGGTT
GGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTAGCCATCTTCGATCTGCTCCA
TAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTCTGCTTCCT
Found at i:17084200 original size:353 final size:354
Alignment explanation
Indices: 17083444--17084215 Score: 1160
Period size: 353 Copynumber: 2.2 Consensus size: 354
17083434 TAGTCTTACA
** * * *
17083444 GCAACTTCAAGAAGATAAGGTTTGTG-ACTTCAACCTGCTCCACTGCAATTTCAGGGAGACAAAG
1 GCAACTTCAAGAAGATAAGACTTGTGTA-TTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGG
* *
17083508 TCGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCACCATCTTCGATCTGCTC
65 TTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCACCATCTTCGATCTACTC
* * *
17083573 CATAGCTGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATA
130 CATAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATA
* * *
17083638 AGACCTATGTCTTCAACCTGCGCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTAC
195 AGACCTATATCTTCAACCTGCGCTCTTGCAACCTCAGAAAGATAAGGCTGGTGGCTAAAATCTAC
* * *
17083703 TCCATAGCCGATACATGGAGATAAGACTTGCCATTTCCGATCTGCTCCATAGCCGATATATGGAG
260 TCCATAGCCAATACATGGAGATAAGACTCGCCATTTCCGATCTGCTCCATAGCCGATACATGGAG
* *
17083768 ATAAGATCTGTAACTTTCAGTCTGCTTCTT
325 ATAAGATCTGCAACTTTCAGTCTGCTTCCT
* * * *
17083798 GCAACTTCAAGAAGATAAGACTAGTGTCTTCAACCTGCT-CTCTGCAACTTCAGAGAGATAAGGT
1 GCAACTTCAAGAAGATAAGACTTGTGTATTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGT
*
17083862 TGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACT-AGCCATCTTTGATCTACTC
66 TGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCA-CCATCTTCGATCTACTC
*
17083926 CATAGCCGATACATGGAGATAAGATCTGCAATTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATA
130 CATAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATA
* * * ** * *
17083991 AGACTTGTATCTTCAACCTGCTCTC-TGCAATTTCAGAAAGATAAGGTTGGTGGCTAAAATCTGC
195 AGACCTATATCTTCAACCTGCGCTCTTGCAACCTCAGAAAGATAAGGCTGGTGGCTAAAATCTAC
17084055 TCCATAGCCAATACATGGAGATAAGACTCGCCATCTT-CGATCTGCTCCATAGCCGATACATGGA
260 TCCATAGCCAATACATGGAGATAAGACTCGCCAT-TTCCGATCTGCTCCATAGCCGATACATGGA
*
17084119 GATAAGATCTGCAACTTTCAGTTTGCTTCCT
324 GATAAGATCTGCAACTTTCAGTCTGCTTCCT
* *
17084150 GCAACTTCAAGAAGATAAGACTTGCGTATT-AAGCCTGCTCCACCGCAACTTCAGGGAGATAAGG
1 GCAACTTCAAGAAGATAAGACTTGTGTATTCAA-CCTGCTCCACTGCAACTTCAGGGAGATAAGG
17084214 TT
65 TT
17084216 TGTAATCTTC
Statistics
Matches: 375, Mismatches: 38, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
351 2 0.01
352 153 0.41
353 186 0.50
354 34 0.09
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.27
Consensus pattern (354 bp):
GCAACTTCAAGAAGATAAGACTTGTGTATTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGT
TGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCACCATCTTCGATCTACTCC
ATAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAA
GACCTATATCTTCAACCTGCGCTCTTGCAACCTCAGAAAGATAAGGCTGGTGGCTAAAATCTACT
CCATAGCCAATACATGGAGATAAGACTCGCCATTTCCGATCTGCTCCATAGCCGATACATGGAGA
TAAGATCTGCAACTTTCAGTCTGCTTCCT
Found at i:17089319 original size:11 final size:11
Alignment explanation
Indices: 17089302--17089331 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
17089292 CCTCTTCTGC
17089302 CTCCTTTCCAT
1 CTCCTTTCCAT
*
17089313 TTCCTTTCCAT
1 CTCCTTTCCAT
17089324 CTCCTTTC
1 CTCCTTTC
17089332 TTTTCTACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.43, G:0.00, T:0.50
Consensus pattern (11 bp):
CTCCTTTCCAT
Found at i:17096384 original size:21 final size:22
Alignment explanation
Indices: 17096360--17096402 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
17096350 AGAACTGAAT
*
17096360 TATACAT-AAATAAATTTAAAA
1 TATACATAAAAAAAATTTAAAA
*
17096381 TATATATAAAAAAAATTTAAAA
1 TATACATAAAAAAAATTTAAAA
17096403 GAGAATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
TATACATAAAAAAAATTTAAAA
Found at i:17096670 original size:3 final size:3
Alignment explanation
Indices: 17096662--17096712 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
17096652 AATAACAAAG
17096662 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17096710 TAA
1 TAA
17096713 AGTAATTCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:17097887 original size:16 final size:18
Alignment explanation
Indices: 17097852--17097889 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
17097842 ATCTTTATTT
17097852 AAATAAAATACAATAGTA
1 AAATAAAATACAATAGTA
17097870 AAATAAAATA-AA-AGTA
1 AAATAAAATACAATAGTA
17097886 AAAT
1 AAAT
17097890 TCATATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAATAGTA
Found at i:17101854 original size:42 final size:42
Alignment explanation
Indices: 17101808--17101953 Score: 159
Period size: 42 Copynumber: 3.3 Consensus size: 42
17101798 CATAGTTCAA
17101808 CTATGGTCTTACATATCTTCACATAAT-GATGCCATAGCCCAG
1 CTATGGTCTTACATATCTTCACAT-ATCGATGCCATAGCCCAG
* * *
17101850 CTATGGTCTTACACATATTCATATATCGATGCCATAGCCCAG
1 CTATGGTCTTACATATCTTCACATATCGATGCCATAGCCCAG
* * *
17101892 CTATGGTGTTACACGTAATCACATATCACATATCGATACCATAGCGCAG
1 CTATGGTCTTACA--T-AT--C-T-TCACATATCGATGCCATAGCCCAG
17101941 CTATGGTCTTACA
1 CTATGGTCTTACA
17101954 CGGATGCCAT
Statistics
Matches: 86, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
41 2 0.02
42 48 0.56
45 2 0.02
48 1 0.01
49 33 0.38
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.30
Consensus pattern (42 bp):
CTATGGTCTTACATATCTTCACATATCGATGCCATAGCCCAG
Found at i:17101927 original size:49 final size:48
Alignment explanation
Indices: 17101917--17102065 Score: 92
Period size: 47 Copynumber: 3.1 Consensus size: 48
17101907 TAATCACATA
* * * *
17101917 TCACATATCGATACCATAGCGCAGCTATGGTCTTACACG-GATGC-CATA
1 TCACATAT-GATGCCATAGCCCAGATATGGTCTTACACGTAAT-CACATA
* * * * * *
17101965 TCACA-CTGATGCCATATCCTAGATATGGTCTTATACAGTAGT-ATATA
1 TCACATATGATGCCATAGCCCAGATATGGTCTTACAC-GTAATCACATA
* * * * *
17102012 TCACA-CTGATGCCATATCCCAGATATGGTCTTATACGGAAGCACATAA
1 TCACATATGATGCCATAGCCCAGATATGGTCTTACACGTAATCACAT-A
17102060 TCACAT
1 TCACAT
17102066 CTCTCCGATG
Statistics
Matches: 80, Mismatches: 15, Indels: 11
0.75 0.14 0.10
Matches are distributed among these distances:
46 25 0.31
47 43 0.54
48 12 0.15
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (48 bp):
TCACATATGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATA
Found at i:17101975 original size:16 final size:16
Alignment explanation
Indices: 17101951--17101982 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17101941 CTATGGTCTT
17101951 ACACGGATGCCATATC
1 ACACGGATGCCATATC
*
17101967 ACACTGATGCCATATC
1 ACACGGATGCCATATC
17101983 CTAGATATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (16 bp):
ACACGGATGCCATATC
Found at i:17111003 original size:46 final size:46
Alignment explanation
Indices: 17110953--17111128 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
17110943 TGGTTGAGCA
17110953 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17110999 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
17111044 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
17111092 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17111129 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:17111109 original size:93 final size:93
Alignment explanation
Indices: 17110950--17111120 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
17110940 GGATGGTTGA
* *
17110950 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
17111015 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
17111043 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
17111108 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
17111121 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Done.