Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 167 of 186
Found at i:55471699 original size:47 final size:46
Alignment explanation
Indices: 55471648--55471808 Score: 140
Period size: 47 Copynumber: 3.6 Consensus size: 46
55471638 GATTTAATAA
55471648 AATTTAAAATAATTATAACTAATAAATTATCTTATATGAATTTGTAT
1 AATTTAAAATAATTATAA-TAATAAATTATCTTATATGAATTTGTAT
* * * * *
55471695 AATTTAAAATAATTATTATTACATATAAT-TTA-AT-AA---GATAT
1 AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTG-TAT
* * * *
55471736 AATTTCATAA-AATTATTGATAATAAATTTTCTTATATGAATTTATAT
1 AATTT-AAAATAATTA-TAATAATAAATTATCTTATATGAATTTGTAT
55471783 AATTTAAAATAATT-TATATAATAAAT
1 AATTTAAAATAATTATA-ATAATAAAT
55471809 CTATTGTATA
Statistics
Matches: 88, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
40 1 0.01
41 13 0.15
42 11 0.12
43 5 0.06
44 4 0.05
45 6 0.07
46 19 0.22
47 29 0.33
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (46 bp):
AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTGTAT
Found at i:55477546 original size:107 final size:105
Alignment explanation
Indices: 55477344--55477554 Score: 323
Period size: 107 Copynumber: 2.0 Consensus size: 105
55477334 TGAATTGAGA
* * * * * *
55477344 TTTAAGAGGATATTTAGCTATTTGGTTAAACGAGAAATCGAAATCCAGCACATTAGGGCACGTTC
1 TTTAAAAGGATACTTAGCTATTTGGTCAAACGAAAAATCGAAACCCAGCACATTAAGGCACGTTC
55477409 CTCGAATTTCCAAACGCAAAATATTATCTTACTTTGAAAT
66 CTCGAATTTCCAAACGCAAAATATTATCTTACTTTGAAAT
*
55477449 TTTAAAAGGATACTTGGCTATTTGGTCAAACGAAAAAATCGAAACCCAGCACATTAAGGCACGTT
1 TTTAAAAGGATACTTAGCTATTTGGTCAAACG-AAAAATCGAAACCCAGCACATTAAGGCACG-T
* *
55477514 TTCTCGAATTTCCAAACGCAAAATATTGTCTTACTTTGAAA
64 TCCTCGAATTTCCAAACGCAAAATATTATCTTACTTTGAAA
55477555 AATTTTCCTT
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
105 28 0.29
106 27 0.28
107 40 0.42
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (105 bp):
TTTAAAAGGATACTTAGCTATTTGGTCAAACGAAAAATCGAAACCCAGCACATTAAGGCACGTTC
CTCGAATTTCCAAACGCAAAATATTATCTTACTTTGAAAT
Found at i:55477784 original size:22 final size:22
Alignment explanation
Indices: 55477760--55477801 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
55477750 CATAAAGTAA
*
55477760 AAAATA-ATAATAATAATAAAT
1 AAAATAGATAAAAATAATAAAT
*
55477781 AAAATAGATAAAAATTATAAA
1 AAAATAGATAAAAATAATAAA
55477802 ATATGAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (22 bp):
AAAATAGATAAAAATAATAAAT
Found at i:55484901 original size:101 final size:100
Alignment explanation
Indices: 55484727--55484928 Score: 314
Period size: 101 Copynumber: 2.0 Consensus size: 100
55484717 GACTTCACTT
* ** * *
55484727 CCTCTTCGTCCACTCTGTAGCGCTTCTTTAGTCTGTCCCATTTGTCATGGTATTCATTCCACACA
1 CCTCTTCATCCACTCCATAGCGCTTCTTCAGTCTGTCCCACTTGTCATGGTATTCATTCCACACA
55484792 TAATCCAATATGAGCAAAAATCGTTTCCCAACAAA
66 TAATCCAATATGAGCAAAAATCGTTTCCCAACAAA
* ***
55484827 CCTCTTCATCCACTCCATAGCGCTTGCTTCAGTCTGTTCCACTTGTCATGGTATTCATTTTGCAC
1 CCTCTTCATCCACTCCATAGCGCTT-CTTCAGTCTGTCCCACTTGTCATGGTATTCATTCCACAC
55484892 ATAATCCAATATGAGCAAAAATCGTTTCCCAACAAA
65 ATAATCCAATATGAGCAAAAATCGTTTCCCAACAAA
55484928 C
1 C
55484929 TATTCTACTA
Statistics
Matches: 92, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
100 22 0.24
101 70 0.76
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (100 bp):
CCTCTTCATCCACTCCATAGCGCTTCTTCAGTCTGTCCCACTTGTCATGGTATTCATTCCACACA
TAATCCAATATGAGCAAAAATCGTTTCCCAACAAA
Found at i:55490841 original size:41 final size:41
Alignment explanation
Indices: 55490784--55490864 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
55490774 AACTCGAATG
* * *
55490784 TTCAGTTGTTTGGATGAAAATAGGTTTTTAATTAAATAAAT
1 TTCAATTGTTAGGATGAAAATAGATTTTTAATTAAATAAAT
*
55490825 TTCAATTGTTAGGATGAAAATATATTTTTAATTAAATAAA
1 TTCAATTGTTAGGATGAAAATAGATTTTTAATTAAATAAA
55490865 ATTAATTTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (41 bp):
TTCAATTGTTAGGATGAAAATAGATTTTTAATTAAATAAAT
Found at i:55494056 original size:100 final size:100
Alignment explanation
Indices: 55493917--55494415 Score: 685
Period size: 100 Copynumber: 5.0 Consensus size: 100
55493907 CTTAAACTTA
* * * *
55493917 TTAATTGCGCTGTCGGAGAAAACCAGATCCGCCGCTGTGACTTCAATCCGCTCCACTACACCGCC
1 TTAATTGCGCTGTCGG-GGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCC
** * **
55493982 AGAAAAGTAAGATCCGCCATTGTCACTTCAATCTTT
65 AGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTT
** *
55494018 TTAATTGCGCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTACACCGCCA
1 TTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCA
* *
55494083 GAGAAGTAAGATCCGTCGTTGTGGCTTCAATCTTT
66 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTT
* * * * * *
55494118 TAAATTGCGCTGTTGGGGAAACCAAATCTGCCGTTGTGACTTCAATCTGCTCCGCTGTACCGCCA
1 TTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCA
* *
55494183 GGGAAAGTAAGATCCGTCGTTGTGGCTTTAATC-TT
66 GGG-AAGTAAGATCCGCCGTTGTGGCTTCAATCTTT
* * * *
55494218 TTAATTGCGCTGTCGGGGAAACCAGATCCGCTGTTTTGACTTCAATCTGCTCCGCTGCACAGCCA
1 TTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCA
*
55494283 GGGAAGTAAGATCCGCCGTTGTGGCTTTAATCTTT
66 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTT
* * * * *
55494318 TAAATTGCACTGTTGGGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCA
1 TTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCA
55494383 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCT
66 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCT
55494416 GTTCCACTTC
Statistics
Matches: 357, Mismatches: 39, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
99 28 0.08
100 286 0.80
101 43 0.12
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (100 bp):
TTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCA
GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTT
Found at i:55494095 original size:50 final size:50
Alignment explanation
Indices: 55493941--55494463 Score: 282
Period size: 50 Copynumber: 10.5 Consensus size: 50
55493931 GGAGAAAACC
* * * * **
55493941 AGATCCGCCGCTGTGACTTCAATCCGCTCCACTACACCGCCAGAAAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
* * ** ** * * * * ***
55493991 AGATCCGCCATTGTCACTTCAATCTTTTTAATTGCGCTGTC-GAAGAAACC
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAG-GGAAGTA
* * *
55494041 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTACACCGCCAGAGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
* * ** ** * * *** **
55494091 AGATCCGTCGTTGTGGCTTCAATCTTTTAAATTGCGCTGTTGGGGAAACCA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGG-AAGTA
* * * *
55494142 A-ATCTGCCGTTGTGACTTCAATCTGCTCCGCTGTACCGCCAGGGAAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGG-AAGTA
* * * * ** * * * * ***
55494192 AGATCCGTCGTTGTGGCTTTAATCT-TTTAATTGCGCTGTCGGGGAAACC
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
* * * *
55494241 AGATCCGCTGTTTTGACTTCAATCTGCTCCGCTGCACAGCCAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
* * ** ** * *** ***
55494291 AGATCCGCCGTTGTGGCTTTAATCTTTTAAATTGCACTGTTGGGGAAACC
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
*
55494341 AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
* * * * * *
55494391 AGATCCGCCGTTGTGGCTTCAATCTGTTCCACTTCAC--CTAAGGAGGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
* *
55494439 AGATTCGCCGTTGTGGCTTCAATCT
1 AGATCCGCCGTTGTGACTTCAATCT
55494464 TTTGGCTTCA
Statistics
Matches: 331, Mismatches: 137, Indels: 12
0.69 0.29 0.03
Matches are distributed among these distances:
48 32 0.10
49 23 0.07
50 252 0.76
51 24 0.07
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (50 bp):
AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
Found at i:55495810 original size:21 final size:21
Alignment explanation
Indices: 55495786--55495828 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
55495776 CACATTGGCC
55495786 TCTCCTATTTTCTCTCTCTCT
1 TCTCCTATTTTCTCTCTCTCT
* *
55495807 TCTCTTATTTTTTCTCTCTCT
1 TCTCCTATTTTCTCTCTCTCT
55495828 T
1 T
55495829 TTTTTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.05, C:0.33, G:0.00, T:0.63
Consensus pattern (21 bp):
TCTCCTATTTTCTCTCTCTCT
Found at i:55495828 original size:16 final size:16
Alignment explanation
Indices: 55495802--55495834 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
55495792 ATTTTCTCTC
55495802 TCTCTTCTCTTATTTTT
1 TCTCTTCTCTT-TTTTT
55495819 TCTC-TCTCTTTTTTT
1 TCTCTTCTCTTTTTTT
55495834 T
1 T
55495835 AAAATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 6 0.38
17 4 0.25
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (16 bp):
TCTCTTCTCTTTTTTT
Found at i:55503494 original size:271 final size:272
Alignment explanation
Indices: 55503009--55503552 Score: 1020
Period size: 271 Copynumber: 2.0 Consensus size: 272
55502999 TAATGCGATG
* *
55503009 TATGAAAATGAATGCAGAAAAGGCGTTAATTCTAATTTTAATTACTTTCAGAAAAACTTTATTAG
1 TATGAAAATGAATGCAGAAAAGGCATTAATTCTAATTTCAATTACTTTCAG-AAAACTTTATTAG
*
55503074 AAAATAAATCTCTTTACATAGATTGGGCTACAAATATGGCTTTGCCCTAATACTTAAGACCTTGA
65 AAAATAAATCTCTTTACATAGAATGGGCTACAAATATGGCTTTGCCCTAATACTTAAGACCTTGA
55503139 TCTTTTTAAGCAACGATGCTAATTCTTGTCCCCGATCTGACTCTAGCTCATACTTCACGCTCAAC
130 TCTTTTTAAGCAACGATGCTAATTCTTGTCCCCGATCTGACTCTAGCTCATACTTCACGCTCAAC
55503204 GTGTCAGCTTGTACGACCAAGGTTTGCAAGTGATCTGCTACCTCCCGAATCTGGATCACAGTGTA
195 GTGTCAGCTTGTACGACCAAGGTTTGCAAGTGATCTGCTACCTCCCGAATCTGGATCACAGTGTA
55503269 ACAACCCGGTTTT
260 ACAACCCGGTTTT
*
55503282 TATGAAAATGAATGCAGAAAAGGCATTGATTCTAATTTCAATTACTTTCAG-AAACTTTATTAGA
1 TATGAAAATGAATGCAGAAAAGGCATTAATTCTAATTTCAATTACTTTCAGAAAACTTTATTAGA
55503346 AAATAAATCTCTTTACATAGAATGGGCTACAAATATGGCTTTGCCCTAATACTTAAGACCCTT-A
66 AAATAAATCTCTTTACATAGAATGGGCTACAAATATGGCTTTGCCCTAATACTTAAGA-CCTTGA
55503410 TCTTTTTAAGCAACGATGCTAATTCTTGTCCCCGATCTGACTCTAGCTCATACTTCACGCTCAAC
130 TCTTTTTAAGCAACGATGCTAATTCTTGTCCCCGATCTGACTCTAGCTCATACTTCACGCTCAAC
55503475 GTGTCAGCTTGTACGACCAAGGTTTGCAAGTGATCTGCTACCTCCCGAATCTGGATCACAGTGTA
195 GTGTCAGCTTGTACGACCAAGGTTTGCAAGTGATCTGCTACCTCCCGAATCTGGATCACAGTGTA
55503540 ACAACCCGGTTTT
260 ACAACCCGGTTTT
55503553 GACTCTAATC
Statistics
Matches: 266, Mismatches: 4, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
271 214 0.80
272 4 0.02
273 48 0.18
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (272 bp):
TATGAAAATGAATGCAGAAAAGGCATTAATTCTAATTTCAATTACTTTCAGAAAACTTTATTAGA
AAATAAATCTCTTTACATAGAATGGGCTACAAATATGGCTTTGCCCTAATACTTAAGACCTTGAT
CTTTTTAAGCAACGATGCTAATTCTTGTCCCCGATCTGACTCTAGCTCATACTTCACGCTCAACG
TGTCAGCTTGTACGACCAAGGTTTGCAAGTGATCTGCTACCTCCCGAATCTGGATCACAGTGTAA
CAACCCGGTTTT
Found at i:55503894 original size:16 final size:19
Alignment explanation
Indices: 55503873--55503911 Score: 57
Period size: 16 Copynumber: 2.2 Consensus size: 19
55503863 TATTAAAGGT
55503873 TAAATAA-GTA-AAT-TAA
1 TAAATAATGTATAATATAA
55503889 TAAATAATGTATAATATAA
1 TAAATAATGTATAATATAA
55503908 TAAA
1 TAAA
55503912 ACAAAACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 3 0.15
18 3 0.15
19 7 0.35
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
TAAATAATGTATAATATAA
Found at i:55505428 original size:41 final size:41
Alignment explanation
Indices: 55505180--55505417 Score: 395
Period size: 41 Copynumber: 5.8 Consensus size: 41
55505170 TTTATCGTTA
* * * *
55505180 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
* *
55505221 GTGACATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
* *
55505262 GTGACATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
55505303 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
55505344 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
55505385 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
55505418 AAGAGCCGGT
Statistics
Matches: 192, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 192 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:55505688 original size:33 final size:32
Alignment explanation
Indices: 55505632--55505695 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
55505622 ATATATATAT
55505632 ATATATATATATGTTGCATTCGGCATAGGTGG
1 ATATATATATATGTTGCATTCGGCATAGGTGG
* *
55505664 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
55505696 AAAATAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (32 bp):
ATATATATATATGTTGCATTCGGCATAGGTGG
Found at i:55505712 original size:33 final size:33
Alignment explanation
Indices: 55505639--55505712 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
55505629 TATATATATA
* * **
55505639 TATATGT-TGCATTCGGCATAGGTGGATATATT
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
55505671 TATGTGTATGCATTCGGCATAGGTGAAAATAAG
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
55505704 TGTATGTAT
1 TATATGTAT
55505713 CTATGCATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (33 bp):
TATATGTATGCATTCGGCATAGGTGAAAATAAG
Found at i:55511622 original size:16 final size:19
Alignment explanation
Indices: 55511601--55511639 Score: 57
Period size: 16 Copynumber: 2.2 Consensus size: 19
55511591 TATTAAAGGT
55511601 TAAATAA-GTA-AAT-TAA
1 TAAATAATGTATAATATAA
55511617 TAAATAATGTATAATATAA
1 TAAATAATGTATAATATAA
55511636 TAAA
1 TAAA
55511640 ACAAAACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 3 0.15
18 3 0.15
19 7 0.35
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
TAAATAATGTATAATATAA
Found at i:55512548 original size:12 final size:12
Alignment explanation
Indices: 55512531--55512556 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
55512521 TCGAATAAGC
55512531 ATGTATATATAT
1 ATGTATATATAT
55512543 ATGTATATATAT
1 ATGTATATATAT
55512555 AT
1 AT
55512557 AATGCTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:55513407 original size:41 final size:41
Alignment explanation
Indices: 55513195--55513389 Score: 372
Period size: 41 Copynumber: 4.8 Consensus size: 41
55513185 AGGCTAAGCG
55513195 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
55513236 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
55513277 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
*
55513318 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
*
55513359 CCTAGCAGGCTACGTGCCGGTGATCTGAATC
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATC
55513390 AAGCTATAAG
Statistics
Matches: 152, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 152 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (41 bp):
CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
Found at i:55539306 original size:20 final size:20
Alignment explanation
Indices: 55539281--55539320 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
55539271 CATTGTATGC
55539281 TGCAAAAGGAAAAAAAGAAT
1 TGCAAAAGGAAAAAAAGAAT
55539301 TGCAAAAGGAAAAAAAGAAT
1 TGCAAAAGGAAAAAAAGAAT
55539321 AGAAAAATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.65, C:0.05, G:0.20, T:0.10
Consensus pattern (20 bp):
TGCAAAAGGAAAAAAAGAAT
Found at i:55539326 original size:19 final size:20
Alignment explanation
Indices: 55539282--55539326 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
55539272 ATTGTATGCT
*
55539282 GCAAAAGGAAAAAAAGAATT
1 GCAAAAGGAAAAAAAGAATA
55539302 GCAAAAGGAAAAAAAGAATA
1 GCAAAAGGAAAAAAAGAATA
55539322 G-AAAA
1 GCAAAA
55539327 ATGTATAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.69, C:0.04, G:0.20, T:0.07
Consensus pattern (20 bp):
GCAAAAGGAAAAAAAGAATA
Found at i:55540727 original size:14 final size:14
Alignment explanation
Indices: 55540689--55540731 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
55540679 CAAAATGTAC
55540689 AATATAATTAAA-T
1 AATATAATTAAATT
55540702 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
55540717 AA-ATAATTTAATT
1 AATATAATTAAATT
55540730 AA
1 AA
55540732 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:55542847 original size:54 final size:54
Alignment explanation
Indices: 55542759--55542924 Score: 260
Period size: 54 Copynumber: 3.1 Consensus size: 54
55542749 AATATGAGAG
*
55542759 TATAAATATTTGGGTCAATGCAAGATTCTTCTTTAAATTTTTGGGTTCTTTCATT
1 TATAAATATTTGGGTC-ATGCAAGATTCTTCTTTAAATTTTTGGGCTCTTTCATT
*
55542814 TATAAATATTTGGGTCATGCAAGATTTTTCTTTAAATTTTTGGGCTCTTTCATT
1 TATAAATATTTGGGTCATGCAAGATTCTTCTTTAAATTTTTGGGCTCTTTCATT
* * * * *
55542868 TATAAATATTTGGGTCATGCAATATTCCTCTTTAAATTTCTAGGCTATTTCATT
1 TATAAATATTTGGGTCATGCAAGATTCTTCTTTAAATTTTTGGGCTCTTTCATT
55542922 TAT
1 TAT
55542925 TGTTTCTAAA
Statistics
Matches: 103, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
54 87 0.84
55 16 0.16
ACGTcount: A:0.26, C:0.12, G:0.13, T:0.49
Consensus pattern (54 bp):
TATAAATATTTGGGTCATGCAAGATTCTTCTTTAAATTTTTGGGCTCTTTCATT
Found at i:55547360 original size:96 final size:96
Alignment explanation
Indices: 55547192--55547382 Score: 364
Period size: 96 Copynumber: 2.0 Consensus size: 96
55547182 AAATATTCAT
*
55547192 CCATCGGATGCTTGGGCTACTTGGAGGATGGAACTAGCCAACCAAATGTTCAATGAATGGCAAGC
1 CCATCGGATGCTTGGGCTACTTGGAGGATGGAACTAGCCAACCAAATGGTCAATGAATGGCAAGC
55547257 ATCTAGAAATTAGTTAGGTTTAGGGACAAAA
66 ATCTAGAAATTAGTTAGGTTTAGGGACAAAA
55547288 CCATCGGATGCTTGGGCTACTTGGAGGATGGAACTAGCCAACCAAATGGTCAATGAATGGCAAGC
1 CCATCGGATGCTTGGGCTACTTGGAGGATGGAACTAGCCAACCAAATGGTCAATGAATGGCAAGC
*
55547353 ATTTAGAAATTAGTTAGGTTTAGGGACAAA
66 ATCTAGAAATTAGTTAGGTTTAGGGACAAA
55547383 TTGAGTTTGA
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 93 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (96 bp):
CCATCGGATGCTTGGGCTACTTGGAGGATGGAACTAGCCAACCAAATGGTCAATGAATGGCAAGC
ATCTAGAAATTAGTTAGGTTTAGGGACAAAA
Found at i:55548981 original size:44 final size:42
Alignment explanation
Indices: 55548856--55549162 Score: 185
Period size: 44 Copynumber: 6.8 Consensus size: 42
55548846 ATGATTTTAG
55548856 TAAATTCATATAAGAATATTTATTATTAAGAATTTTATGAATTATA
1 TAAATTCATATAA-AA-ATTTATTATTAAGAATTTTA--AATTATA
* * **
55548902 TATCATT-AT-TAAATAATATTTAATATTAATTATTTTAAATTATA
1 TA-AATTCATAT-AA-AA-ATTTATTATTAAGAATTTTAAATTATA
*
55548946 TAAATTCATATAAGAAACTTTATTATCAAGAATTTTATGAAATTATA
1 TAAATTCATATAA-AAA-TTTATTATTAAGAA-TTT-T-AAATTATA
* * **
55548993 TATCATT-AT-TAAATTATATTTAATATTAATTATTTTAAATTATA
1 TA-AATTCATATAAA--A-ATTTATTATTAAGAATTTTAAATTATA
*
55549037 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATA
1 TAAATTCATAT-A-AAAATTTATTATTAAGAA-TTT-T-AAATTATA
* * **
55549084 TATCATT-AT-TAAATTATATTTAATATTAATTATTTTAAATTATA
1 TA-AATTCATATAAA--A-ATTTATTATTAAGAATTTTAAATTATA
*
55549128 TAAATTCATATAACAAAATTTATTATCAAGAATTT
1 TAAATTCATAT-A-AAAATTTATTATTAAGAATTT
55549163 GATGAAGTTA
Statistics
Matches: 203, Mismatches: 31, Indels: 56
0.70 0.11 0.19
Matches are distributed among these distances:
43 10 0.05
44 76 0.37
45 16 0.08
46 41 0.20
47 53 0.26
48 7 0.03
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (42 bp):
TAAATTCATATAAAAATTTATTATTAAGAATTTTAAATTATA
Found at i:55549024 original size:91 final size:91
Alignment explanation
Indices: 55548856--55549231 Score: 646
Period size: 91 Copynumber: 4.1 Consensus size: 91
55548846 ATGATTTTAG
* * *
55548856 TAAATTCATATAAGAATATTTATTATTAAGAATTTTATG-AATTATATATCATTATTAAATAATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
55548920 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
55548946 TAAATTCATATAAGAAACTTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
55549011 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
55549037 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
55549102 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
* * * *
55549128 TAAATTCATATAACAAAATTTATTATCAAGAATTTGATGAAGTTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
* *
55549193 TTTAATAATAATTATATTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
55549219 CAAATTCATATAA
1 TAAATTCATATAA
55549232 TTAAATTATA
Statistics
Matches: 273, Mismatches: 12, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
90 36 0.13
91 237 0.87
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TTTAATATTAATTATTTTAAATTATA
Found at i:55549265 original size:29 final size:28
Alignment explanation
Indices: 55549229--55549327 Score: 96
Period size: 28 Copynumber: 3.6 Consensus size: 28
55549219 CAAATTCATA
55549229 TAATTAAATTATATTTAATAATAATTAT
1 TAATTAAATTATATTTAATAATAATTAT
* * * * *
55549257 TATTTTAAATTTTATTAAATCATATAGT-T
1 TA-ATTAAATTATATTTAATAATA-ATTAT
*
55549286 TAATTAAAATATATTTAATAATAATTAT
1 TAATTAAATTATATTTAATAATAATTAT
*
55549314 T--TCAAATTATATTT
1 TAATTAAATTATATTT
55549328 TATACTATCA
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
26 11 0.20
27 2 0.04
28 20 0.36
29 20 0.36
30 2 0.04
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (28 bp):
TAATTAAATTATATTTAATAATAATTAT
Found at i:55549289 original size:91 final size:88
Alignment explanation
Indices: 55548856--55549281 Score: 432
Period size: 91 Copynumber: 4.7 Consensus size: 88
55548846 ATGATTTTAG
* * * * * *
55548856 TAAATTCATATAAGAATATTTATTATTAAGAAT-TTTATGAATTATATATCATTATTAAATAATA
1 TAAATTCATATAACAAAATTTA-T-TTAATAATAATTATGAATTATATAT-TTTATTAAATTATA
55548920 TTTAATATTAATTATTTTAAATTATA
63 TTTAATATTAATTATTTTAAATTATA
* * * * *
55548946 TAAATTCATATAAGAAACTTTATTATCAAGAAT-TTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAACAAAATTTATT-T-AATAATAATTATG-AATTATATAT-TTTATTAAATTAT
55549010 ATTTAATATTAATTATTTTAAATTATA
62 ATTTAATATTAATTATTTTAAATTATA
* * * *
55549037 TAAATTCATATAAGAAAATTTATTATCAAGAAT-TTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAACAAAATTTATT-T-AATAATAATTATG-AATTATATAT-TTTATTAAATTAT
55549101 ATTTAATATTAATTATTTTAAATTATA
62 ATTTAATATTAATTATTTTAAATTATA
*
55549128 TAAATTCATATAACAAAATTTA-TT-ATCAAGAATTTGATGAAGTTATATATTATTATTAAATTA
1 TAAATTCATATAACAAAATTTATTTAAT-AATAA-TT-ATGAA-TTATATATT-TTATTAAATTA
* *
55549191 TATTTAATAATAATTATATTAAATTATA
61 TATTTAATATTAATTATTTTAAATTATA
* ** * * * *
55549219 CAAATTCATATAATTAAATTATATTTAATAATAATTAT-TATTTTAAATTTTATTAAATCATAT
1 TAAATTCATATAACAAAATT-TATTTAATAATAATTATGAATTATATATTTTATTAAATTATAT
55549282 AGTTTAATTA
Statistics
Matches: 305, Mismatches: 19, Indels: 26
0.87 0.05 0.07
Matches are distributed among these distances:
87 1 0.00
88 16 0.05
89 10 0.03
90 38 0.12
91 228 0.75
92 4 0.01
93 6 0.02
94 2 0.01
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (88 bp):
TAAATTCATATAACAAAATTTATTTAATAATAATTATGAATTATATATTTTATTAAATTATATTT
AATATTAATTATTTTAAATTATA
Found at i:55549368 original size:120 final size:120
Alignment explanation
Indices: 55549264--55549559 Score: 477
Period size: 120 Copynumber: 2.5 Consensus size: 120
55549254 TATTATTTTA
*
55549264 AATTTTATTAAATCATATAGTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTATATTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTT-AAATTATATTT
*
55549328 TATACTATCATATATTATGATTTTAGGAAATTCATATAATAATATTGATTATTAAG
65 TATACTATCATATATTATGATTTGAGGAAATTCATATAATAATATTGATTATTAAG
55549384 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAATTATATTTT
** * * * *
55549449 ATGGTATCATCTATTATGATTTGAGTAAATTCATATAACAATATTGATTATTAAT
66 ATACTATCATATATTATGATTTGAGGAAATTCATATAATAATATTGATTATTAAG
* * *
55549504 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAA
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAA
55549560 ATATGATTAA
Statistics
Matches: 164, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
120 162 0.99
121 2 0.01
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAATTATATTTT
ATACTATCATATATTATGATTTGAGGAAATTCATATAATAATATTGATTATTAAG
Found at i:55549399 original size:61 final size:60
Alignment explanation
Indices: 55549334--55549524 Score: 169
Period size: 61 Copynumber: 3.2 Consensus size: 60
55549324 ATTTTATACT
*
55549334 ATCATATATTATGATTTTAGGAAATTCATATAATAATATTGATTATTAAGAATTTTATTAA
1 ATCATATATTATGATTTTA-GAAATTCATATAATAATATTGATTATTAATAATTTTATTAA
* * * * ***
55549395 ATCATATATT-TTA-ATTA-AAATAT-ATTTAATAATAATT-ATCT-TAAATTATATTTTATGGT
1 ATCATATATTATGATTTTAGAAAT-TCATATAATAAT-ATTGAT-TATTAA-TA-ATTTTATTAA
* * *
55549454 ATCATCTATTATGATTTGAGTAAATTCATATAACAATATTGATTATTAATAATTTTATTAA
1 ATCATATATTATGATTTTAG-AAATTCATATAATAATATTGATTATTAATAATTTTATTAA
*
55549515 ATTATATATT
1 ATCATATATT
55549525 TTAATTATAA
Statistics
Matches: 98, Mismatches: 20, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 18 0.18
58 6 0.06
59 19 0.19
60 4 0.04
61 27 0.28
62 7 0.07
63 17 0.17
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (60 bp):
ATCATATATTATGATTTTAGAAATTCATATAATAATATTGATTATTAATAATTTTATTAA
Found at i:55549544 original size:15 final size:15
Alignment explanation
Indices: 55549509--55549550 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
55549499 TTAATAATTT
*
55549509 TATTAAATTAT-ATA
1 TATTTAATTATAATA
55549523 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
55549537 TATTTAATAATAAT
1 TATTTAATTATAAT
55549551 TATGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:55550005 original size:22 final size:21
Alignment explanation
Indices: 55549971--55550020 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
55549961 GTTTTAAAAC
*
55549971 TTTTGATTACTTTTTTCTGTTT
1 TTTTGATTACTTTTTACT-TTT
55549993 TTTTGACTT-CTTTTTAC-TTT
1 TTTTGA-TTACTTTTTACTTTT
55550013 TTTTGATT
1 TTTTGATT
55550021 GAAAGCTCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 9 0.35
22 13 0.50
23 2 0.08
ACGTcount: A:0.10, C:0.10, G:0.08, T:0.72
Consensus pattern (21 bp):
TTTTGATTACTTTTTACTTTT
Found at i:55550704 original size:26 final size:26
Alignment explanation
Indices: 55550665--55550738 Score: 76
Period size: 33 Copynumber: 2.5 Consensus size: 26
55550655 TTGAAACTTT
55550665 TCGAGAAAAGAGAATATTTCACGTTAA
1 TCGAG-AAAGAGAATATTTCACGTTAA
55550692 TCGAGAAAGAGAATTATAAATATTTCACGTTAA
1 TCGAGAAAGAG-------AATATTTCACGTTAA
55550725 TCGAGAAAGAGAAT
1 TCGAGAAAGAGAAT
55550739 TATATCCAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 15
0.73 0.00 0.27
Matches are distributed among these distances:
26 9 0.22
27 5 0.12
33 26 0.65
ACGTcount: A:0.46, C:0.09, G:0.19, T:0.26
Consensus pattern (26 bp):
TCGAGAAAGAGAATATTTCACGTTAA
Found at i:55550714 original size:33 final size:33
Alignment explanation
Indices: 55550677--55550742 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
55550667 GAGAAAAGAG
55550677 AATATTTCACGTTAATCGAGAAAGAGAATTATA
1 AATATTTCACGTTAATCGAGAAAGAGAATTATA
55550710 AATATTTCACGTTAATCGAGAAAGAGAATTATA
1 AATATTTCACGTTAATCGAGAAAGAGAATTATA
55550743 TCCAGTAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.30
Consensus pattern (33 bp):
AATATTTCACGTTAATCGAGAAAGAGAATTATA
Found at i:55551699 original size:22 final size:23
Alignment explanation
Indices: 55551648--55551700 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
55551638 ACTAATCCCA
* *
55551648 TCTCAAATTTCCTCTCAATTTAT
1 TCTCAAATTTACTCTCAATTTAC
* *
55551671 TCT-AAATTTATTCT-AATTTGC
1 TCTCAAATTTACTCTCAATTTAC
55551692 TCTCAAATT
1 TCTCAAATT
55551701 CCTTCAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 8 0.32
22 14 0.56
23 3 0.12
ACGTcount: A:0.28, C:0.21, G:0.02, T:0.49
Consensus pattern (23 bp):
TCTCAAATTTACTCTCAATTTAC
Found at i:55551748 original size:51 final size:50
Alignment explanation
Indices: 55551676--55551780 Score: 131
Period size: 51 Copynumber: 2.1 Consensus size: 50
55551666 TTTATTCTAA
*
55551676 ATTTATTCTAATTTGCTCTCAAATTCCT-TCAAAATTTCTCTCAAATCCAT
1 ATTTATTCTAATTTACTCTCAAATTCCTCT-AAAATTTCTCTCAAATCCAT
* * * * *
55551726 ATTTATTTTCAATTTACTCTCAAGTTCCTCTTAAATTTCTCTTAAATCCCT
1 ATTTATTCT-AATTTACTCTCAAATTCCTCTAAAATTTCTCTCAAATCCAT
55551777 ATTT
1 ATTT
55551781 TTAAATAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
50 8 0.17
51 38 0.81
52 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.02, T:0.48
Consensus pattern (50 bp):
ATTTATTCTAATTTACTCTCAAATTCCTCTAAAATTTCTCTCAAATCCAT
Found at i:55551797 original size:17 final size:17
Alignment explanation
Indices: 55551777--55551816 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
55551767 TTAAATCCCT
55551777 ATTTTTAAATAATTTTA
1 ATTTTTAAATAATTTTA
* **
55551794 ATTTTTTAATTTTTTTA
1 ATTTTTAAATAATTTTA
55551811 ATTTTT
1 ATTTTT
55551817 TTAAACCGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTTAAATAATTTTA
Found at i:55551809 original size:9 final size:9
Alignment explanation
Indices: 55551789--55551820 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
55551779 TTTTAAATAA
55551789 TTTTAA-TT
1 TTTTAATTT
55551797 TTTTAATTT
1 TTTTAATTT
55551806 TTTTAATTT
1 TTTTAATTT
55551815 TTTTAA
1 TTTTAA
55551821 ACCGTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.26
9 17 0.74
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTAATTT
Found at i:55553903 original size:21 final size:21
Alignment explanation
Indices: 55553858--55553903 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
55553848 TGCCCTACTG
* *
55553858 GAAGAACCAGAATCCCCACCG
1 GAAGAACCACAATCCCCACCA
* *
55553879 GAAGAACCACAATCGCCGCCA
1 GAAGAACCACAATCCCCACCA
55553900 GAAG
1 GAAG
55553904 TTGGACAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.35, G:0.22, T:0.04
Consensus pattern (21 bp):
GAAGAACCACAATCCCCACCA
Found at i:55554213 original size:22 final size:21
Alignment explanation
Indices: 55554145--55555351 Score: 897
Period size: 22 Copynumber: 55.9 Consensus size: 21
55554135 TTTAATTGAC
**
55554145 AAACCCTTAAACCCTTAACCCCA
1 AAACCC-TAAACCCTTAA-CTAA
* *
55554168 AAACCCT-AACTCTTAACTTTA
1 AAACCCTAAACCCTTAAC-TAA
55554189 AAACCCTAAACCCTTAAGCTAA
1 AAACCCTAAACCCTTAA-CTAA
* * *
55554211 AAATCATAAACCCTTAAATTAA
1 AAACCCTAAACCCTT-AACTAA
* * * *
55554233 AAACACT-AACCCATAAATTCA
1 AAACCCTAAACCC-TTAACTAA
* *
55554254 AAACCCTAAACCTTTAAATTAA
1 AAACCCTAAACCCTT-AACTAA
55554276 AAACCCT-AACCCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAA
* * **
55554297 AAACACT-AACCTTTAACTTTT
1 AAACCCTAAACCCTTAAC-TAA
* * * *
55554318 AAACCCTAGACTCTGAACTTA
1 AAACCCTAAACCCTTAACTAA
55554339 AAACCCTTAAACCCTTAACTTAA
1 AAACCC-TAAACCCTTAAC-TAA
* * *
55554362 AAACACT-AATCCTTAAATTAA
1 AAACCCTAAACCCTT-AACTAA
* * *
55554383 TAACCCTTAACCCTTAACCAAA
1 AAACCCTAAACCCTTAA-CTAA
55554405 AAACCCT-AACCCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAA
* *
55554426 AAACCCTAAA-TCTTAACTTTA
1 AAACCCTAAACCCTTAAC-TAA
*
55554447 AAACCCTAGA-CCTCTAACTTAA
1 AAACCCTAAACCCT-TAAC-TAA
55554469 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAA
* *
55554491 AAACCAT-AACCCTTAAATTAA
1 AAACCCTAAACCCTT-AACTAA
* *
55554512 AAACACTAAACCCTAACCTTTAACCTGA
1 AAACCCTAAA--C---CC-TTAA-CTAA
*
55554540 AAACCCTAAA-CCTTAACTTTA
1 AAACCCTAAACCCTTAAC-TAA
* *
55554561 AAACACTAGACCCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAA
*
55554583 AAACCCTAAACTCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAA
*
55554605 AAACACT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAA
*
55554626 AAACCCTAAAGCCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAA
*
55554648 AAACCCT-AACTCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAA
* *
55554669 AAACCCTAAA-TCTTAACTTTA
1 AAACCCTAAACCCTTAAC-TAA
*
55554690 AAACCCTAGACCCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAA
*
55554712 AAACCCTAAACCCTTAACT-T
1 AAACCCTAAACCCTTAACTAA
* * *
55554732 AAAGCCTTAACCCTTAAATTAA
1 AAACCCTAAACCCTT-AACTAA
**
55554754 AAACATTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAA
*
55554776 AAACCAT-AACCCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAA
*
55554797 AAACCCTAAA-CCTTAACTTTA
1 AAACCCTAAACCCTTAAC-TAA
*
55554818 AAACCCTAAACCCTTAACTTTA
1 AAACCCTAAACCCTTAAC-TAA
55554840 AAACCCTAAATCCC-TAACTTAA
1 AAACCCTAAA-CCCTTAAC-TAA
* *
55554862 AAACCCT-GACCCTTAAATTAA
1 AAACCCTAAACCCTT-AACTAA
*
55554883 AAACACT-AACCCTTAACTAA
1 AAACCCTAAACCCTTAACTAA
*
55554903 AAACCCTAAA-CCTTAACTTTA
1 AAACCCTAAACCCTTAAC-TAA
*
55554924 AAACCCTAGACCCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAA
55554946 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAA
*
55554968 AAATCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAA
**
55554989 AAACCCT-AACATTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAA
* *
55555010 AAACCCTAAA-CTTTAACTTTA
1 AAACCCTAAACCCTTAAC-TAA
* *
55555031 AAACCCTAGACCCTTAATTTAA
1 AAACCCTAAACCCTTAA-CTAA
55555053 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAA
** *
55555075 AAACAAT-AACCCTTAAATTAA
1 AAACCCTAAACCCTT-AACTAA
*
55555096 AAACCCTAAACCCTTAATTTAA
1 AAACCCTAAACCCTTAA-CTAA
*
55555118 AAACCCTAAACCTTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAA
** *
55555140 AAACAATAAA-CCTTAAATTAA
1 AAACCCTAAACCCTT-AACTAA
55555161 AAACCCTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAA
*
55555183 AAACCCTAAA-CCTTAACTTTA
1 AAACCCTAAACCCTTAAC-TAA
* *
55555204 AAACCTTAAACCCTTAACTTAG
1 AAACCCTAAACCCTTAAC-TAA
* *
55555226 AAACCATAAACCATTAACTTAA
1 AAACCCTAAACCCTTAAC-TAA
* *
55555248 AAACCAT-AACCCTTAAATTAA
1 AAACCCTAAACCCTT-AACTAA
55555269 AAACCCTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAA
*
55555291 AAACCAT-AACCCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAA
* *
55555312 AAACCTTAAA-CCTTAACTTTA
1 AAACCCTAAACCCTTAAC-TAA
*
55555333 AAACCCTAGACCCTTAACT
1 AAACCCTAAACCCTTAACT
55555352 TAAATATAAT
Statistics
Matches: 973, Mismatches: 141, Indels: 142
0.77 0.11 0.11
Matches are distributed among these distances:
20 45 0.05
21 441 0.45
22 445 0.46
23 24 0.02
24 1 0.00
27 4 0.00
28 13 0.01
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (21 bp):
AAACCCTAAACCCTTAACTAA
Found at i:55554233 original size:43 final size:43
Alignment explanation
Indices: 55554145--55555355 Score: 1087
Period size: 43 Copynumber: 28.0 Consensus size: 43
55554135 TTTAATTGAC
** * *
55554145 AAACCCTTAAACCCTTAACCCCAAAACCCT-AACTCTTAACTTTA
1 AAACCC-TAAACCCTTAA-CTAAAAACCCTAAACCCTTAACTTAA
* * *
55554189 AAACCCTAAACCCTTAAGCTAAAAATCATAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAA-CTAAAAACCCTAAACCCTTAACTTAA
* * * * * *
55554233 AAACACT-AACCCATAAATTCAAAACCCTAAACCTTTAAATTAA
1 AAACCCTAAACCC-TTAACTAAAAACCCTAAACCCTTAACTTAA
* * **
55554276 AAACCCT-AACCCTTAACCTAAAAACACT-AACCTTTAACTTTT
1 AAACCCTAAACCCTTAA-CTAAAAACCCTAAACCCTTAACTTAA
* * * *
55554318 AAACCCTAGACTCTGAACTTAAAACCCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTAAAAACCC-TAAACCCTTAACTTAA
* * * * * **
55554362 AAACACT-AATCCTTAAATTAATAACCCTTAACCCTTAACCAAA
1 AAACCCTAAACCCTT-AACTAAAAACCCTAAACCCTTAACTTAA
* *
55554405 AAACCCT-AACCCTTAACCTAAAAACCCTAAA-TCTTAACTTTA
1 AAACCCTAAACCCTTAA-CTAAAAACCCTAAACCCTTAACTTAA
*
55554447 AAACCCTAGA-CCTCTAACTTAAAAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCT-TAAC-TAAAAACCCTAAACCCTTAACTTAA
* * *
55554491 AAACCAT-AACCCTTAAATTAAAAACACTAAACCC-TAACCTTTAACCTGA
1 AAACCCTAAACCCTT-AACTAAAAACCCTAAACCCTTAA-C-TT-A----A
* * *
55554540 AAACCCTAAA-CCTTAACTTTAAAACACTAGACCCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAAAAACCCTAAACCCTTAACTTAA
* *
55554583 AAACCCTAAACTCTTAACTTAAAAACACT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAAAAACCCTAAACCCTTAACTTAA
* * *
55554626 AAACCCTAAAGCCTTAACCTAAAAACCCT-AACTCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAAAAACCCTAAACCCTTAACTTAA
* * *
55554669 AAACCCTAAA-TCTTAACTTTAAAACCCTAGACCCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAAAAACCCTAAACCCTTAACTTAA
* * * *
55554712 AAACCCTAAACCCTTAACT-TAAAGCCTTAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTAAAAACCCTAAACCCTTAACTTAA
** * *
55554754 AAACATTAAACCCTTAACCTAAAAACCAT-AACCCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAAAAACCCTAAACCCTTAACTTAA
* *
55554797 AAACCCTAAA-CCTTAACTTTAAAACCCTAAACCCTTAACTTTA
1 AAACCCTAAACCCTTAAC-TAAAAACCCTAAACCCTTAACTTAA
* *
55554840 AAACCCTAAATCCC-TAACTTAAAAACCCT-GACCCTTAAATTAA
1 AAACCCTAAA-CCCTTAAC-TAAAAACCCTAAACCCTTAACTTAA
* *
55554883 AAACACT-AACCCTTAACTAAAAACCCTAAA-CCTTAACTTTA
1 AAACCCTAAACCCTTAACTAAAAACCCTAAACCCTTAACTTAA
*
55554924 AAACCCTAGACCCTTAACCTAAAAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAA-CTAAAAACCCTAAACCCTTAACTTAA
* ** *
55554968 AAATCCT-AACCCTTAACTTAAAAACCCT-AACATTTAACCTAA
1 AAACCCTAAACCCTTAAC-TAAAAACCCTAAACCCTTAACTTAA
* * * *
55555010 AAACCCTAAA-CTTTAACTTTAAAACCCTAGACCCTTAATTTAA
1 AAACCCTAAACCCTTAAC-TAAAAACCCTAAACCCTTAACTTAA
** *
55555053 AAACCCTAAACCCTTAACTTAAAAACAAT-AACCCTTAAATTAA
1 AAACCCTAAACCCTTAAC-TAAAAACCCTAAACCCTTAACTTAA
* *
55555096 AAACCCTAAACCCTTAATTTAAAAACCCTAAACCTTTAACTTAA
1 AAACCCTAAACCCTTAA-CTAAAAACCCTAAACCCTTAACTTAA
** * *
55555140 AAACAATAAA-CCTTAAATTAAAAACCCTAAACCCTTAACCTAA
1 AAACCCTAAACCCTT-AACTAAAAACCCTAAACCCTTAACTTAA
* * *
55555183 AAACCCTAAA-CCTTAACTTTAAAACCTTAAACCCTTAACTTAG
1 AAACCCTAAACCCTTAAC-TAAAAACCCTAAACCCTTAACTTAA
* * * *
55555226 AAACCATAAACCATTAACTTAAAAACCAT-AACCCTTAAATTAA
1 AAACCCTAAACCCTTAAC-TAAAAACCCTAAACCCTTAACTTAA
* *
55555269 AAACCCTAAACCCTTAACCTAAAAACCAT-AACCCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAAAAACCCTAAACCCTTAACTTAA
* * *
55555312 AAACCTTAAA-CCTTAACTTTAAAACCCTAGACCCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAAAAACCCTAAACCCTTAACTTAA
55555355 A
1 A
55555356 TATAATTTGA
Statistics
Matches: 960, Mismatches: 155, Indels: 105
0.79 0.13 0.09
Matches are distributed among these distances:
41 31 0.03
42 178 0.19
43 528 0.55
44 184 0.19
45 3 0.00
47 1 0.00
48 4 0.00
49 26 0.03
50 5 0.01
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (43 bp):
AAACCCTAAACCCTTAACTAAAAACCCTAAACCCTTAACTTAA
Found at i:55555352 original size:22 final size:21
Alignment explanation
Indices: 55554167--55555355 Score: 1150
Period size: 21 Copynumber: 55.1 Consensus size: 21
55554157 CCTTAACCCC
* *
55554167 AAAACCCTAACTCTTAACTTT
1 AAAACCCTAACCCTTAACTTA
55554188 AAAACCCTAAACCCTTAAGC-TA
1 AAAACCCT-AACCCTTAA-CTTA
* * *
55554210 AAAATCATAAACCCTTAAATTA
1 AAAACCCT-AACCCTTAACTTA
* * * *
55554232 AAAACACTAACCCATAAATTC
1 AAAACCCTAACCCTTAACTTA
* *
55554253 AAAACCCTAAACCTTTAAATTA
1 AAAACCCT-AACCCTTAACTTA
*
55554275 AAAACCCTAACCCTTAACCTA
1 AAAACCCTAACCCTTAACTTA
* * *
55554296 AAAACACTAACCTTTAACTTT
1 AAAACCCTAACCCTTAACTTA
* * *
55554317 TAAACCCTAGACTCTGAACTT-
1 AAAACCCTA-ACCCTTAACTTA
55554338 AAAACCCTTAAACCCTTAACTTA
1 AAAACCC-T-AACCCTTAACTTA
* * *
55554361 AAAACACTAATCCTTAAATTA
1 AAAACCCTAACCCTTAACTTA
* **
55554382 ATAACCCTTAACCCTTAACCAA
1 AAAACCC-TAACCCTTAACTTA
*
55554404 AAAACCCTAACCCTTAACCTA
1 AAAACCCTAACCCTTAACTTA
** *
55554425 AAAACCCTAAATCTTAACTTT
1 AAAACCCTAACCCTTAACTTA
55554446 AAAACCCTAGA-CCTCTAACTTA
1 AAAACCCTA-ACCCT-TAACTTA
55554468 AAAACCCTAAACCCTTAACTTA
1 AAAACCCT-AACCCTTAACTTA
* *
55554490 AAAACCATAACCCTTAAATTA
1 AAAACCCTAACCCTTAACTTA
*
55554511 AAAACACTAAACCC-TAACCTTTAA
1 AAAACCCT-AACCCTTAA-C-TT-A
* *
55554535 CCTGAAAACCCTAAACCTTAACTTT
1 ----AAAACCCTAACCCTTAACTTA
*
55554560 AAAACACTAGACCCTTAACTTA
1 AAAACCCTA-ACCCTTAACTTA
*
55554582 AAAACCCTAAACTCTTAACTTA
1 AAAACCCT-AACCCTTAACTTA
*
55554604 AAAACACTAACCCTTAACTTA
1 AAAACCCTAACCCTTAACTTA
* *
55554625 AAAACCCTAAAGCCTTAACCTA
1 AAAACCCT-AACCCTTAACTTA
* *
55554647 AAAACCCTAACTCTTAACCTA
1 AAAACCCTAACCCTTAACTTA
** *
55554668 AAAACCCTAAATCTTAACTTT
1 AAAACCCTAACCCTTAACTTA
55554689 AAAACCCTAGACCCTTAACTTA
1 AAAACCCTA-ACCCTTAACTTA
55554711 AAAACCCTAAACCCTTAACTT-
1 AAAACCCT-AACCCTTAACTTA
* * *
55554732 AAAGCCTTAACCCTTAAATTA
1 AAAACCCTAACCCTTAACTTA
** *
55554753 AAAACATTAAACCCTTAACCTA
1 AAAACCCT-AACCCTTAACTTA
* *
55554775 AAAACCATAACCCTTAACCTA
1 AAAACCCTAACCCTTAACTTA
* *
55554796 AAAACCCTAAACCTTAACTTT
1 AAAACCCTAACCCTTAACTTA
*
55554817 AAAACCCTAAACCCTTAACTTT
1 AAAACCCT-AACCCTTAACTTA
55554839 AAAACCCTAAATCCC-TAACTTA
1 AAAACCCT-AA-CCCTTAACTTA
* *
55554861 AAAACCCTGACCCTTAAATTA
1 AAAACCCTAACCCTTAACTTA
*
55554882 AAAACACTAACCCTTAAC-TA
1 AAAACCCTAACCCTTAACTTA
* *
55554902 AAAACCCTAAACCTTAACTTT
1 AAAACCCTAACCCTTAACTTA
*
55554923 AAAACCCTAGACCCTTAACCTA
1 AAAACCCTA-ACCCTTAACTTA
55554945 AAAACCCTAAACCCTTAACTTA
1 AAAACCCT-AACCCTTAACTTA
*
55554967 AAAATCCTAACCCTTAACTTA
1 AAAACCCTAACCCTTAACTTA
** *
55554988 AAAACCCTAACATTTAACCTA
1 AAAACCCTAACCCTTAACTTA
* * *
55555009 AAAACCCTAAACTTTAACTTT
1 AAAACCCTAACCCTTAACTTA
*
55555030 AAAACCCTAGACCCTTAATTTA
1 AAAACCCTA-ACCCTTAACTTA
55555052 AAAACCCTAAACCCTTAACTTA
1 AAAACCCT-AACCCTTAACTTA
** *
55555074 AAAACAATAACCCTTAAATTA
1 AAAACCCTAACCCTTAACTTA
*
55555095 AAAACCCTAAACCCTTAATTTA
1 AAAACCCT-AACCCTTAACTTA
*
55555117 AAAACCCTAAACCTTTAACTTA
1 AAAACCCT-AACCCTTAACTTA
** * *
55555139 AAAACAATAAACCTTAAATTA
1 AAAACCCTAACCCTTAACTTA
*
55555160 AAAACCCTAAACCCTTAACCTA
1 AAAACCCT-AACCCTTAACTTA
* *
55555182 AAAACCCTAAACCTTAACTTT
1 AAAACCCTAACCCTTAACTTA
*
55555203 AAAACCTTAAACCCTTAACTTA
1 AAAACCCT-AACCCTTAACTTA
* * *
55555225 GAAACCATAAACCATTAACTTA
1 AAAACCCT-AACCCTTAACTTA
* *
55555247 AAAACCATAACCCTTAAATTA
1 AAAACCCTAACCCTTAACTTA
*
55555268 AAAACCCTAAACCCTTAACCTA
1 AAAACCCT-AACCCTTAACTTA
* *
55555290 AAAACCATAACCCTTAACCTA
1 AAAACCCTAACCCTTAACTTA
* * *
55555311 AAAACCTTAAACCTTAACTTT
1 AAAACCCTAACCCTTAACTTA
55555332 AAAACCCTAGACCCTTAACTTA
1 AAAACCCTA-ACCCTTAACTTA
55555354 AA
1 AA
55555356 TATAATTTGA
Statistics
Matches: 972, Mismatches: 154, Indels: 83
0.80 0.13 0.07
Matches are distributed among these distances:
20 32 0.03
21 454 0.47
22 447 0.46
23 21 0.02
24 1 0.00
26 2 0.00
27 5 0.01
28 10 0.01
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (21 bp):
AAAACCCTAACCCTTAACTTA
Found at i:55558794 original size:126 final size:124
Alignment explanation
Indices: 55558528--55559093 Score: 679
Period size: 126 Copynumber: 4.5 Consensus size: 124
55558518 CCAAACATGT
*
55558528 TACTATAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
* * * * *
55558593 AGAAGCGATTTTATACTATTTGTTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGACC
66 TGAAGCGTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACC
* * *
55558652 AACTGTAGCAAAAGCGCGTCCATGAT-GGCGCGATTTCACAAATTCTTCTCA-AATAGCATGCTG
1 TACTGTAGCAAAAGCGCGTCCACG-TGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* * * *
55558715 CTT-ATAGCGTTGTTTTATACCATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGACC
64 CTTGA-AGCG-T-TTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACC
* * * * * * *
55558778 TACTATAGTAAAAGCGCGTCCACGTGGGCGCGACTTCACAAACTCTTCTTATAAATCATTCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
* *
55558843 TGAAGCGTTTTTAAACTATTTGGTCAAAAACGTCAACTCGAAATTATTTCTTCCAGGACC
66 TGAAGCGTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGACC
* * * * * *
55558903 AACTGTAGTAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCACAAAGCATCCTACT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
* * * *
55558968 TGAAGCATTTTTTAAACTATTTGCTCAGAAAAGTCAAGTCGAAATTATTTTTCCACGACC
66 TGAAGC-GTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACC
* * * * * * * * *
55559028 TACTGTAGCAAAATCGCGTACATGTGGGCGCAACTTCAAAAATCCTTCTGATAAATCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
55559093 T
66 T
55559094 TGATTTTATC
Statistics
Matches: 374, Mismatches: 58, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
123 3 0.01
124 96 0.26
125 132 0.35
126 140 0.37
127 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (124 bp):
TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
TGAAGCGTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACC
Found at i:55558992 original size:250 final size:250
Alignment explanation
Indices: 55558528--55559093 Score: 771
Period size: 250 Copynumber: 2.3 Consensus size: 250
55558518 CCAAACATGT
* * *
55558528 TACTATAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
1 TACTATAGCAAAAGCGCGTCCACGTGGGCGCGACTTCACAAAATCTTCTCATAAATCATCCTGCT
* * * * *
55558593 AGAAGCGATTTTATACTATTTGTTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGACCAACTGT
66 TGAAGCGATTTTAAACTATTTGGTCAAAAACGTCAACTCGAAATTATTTTTCCAGGACCAACTGT
* * * * *
55558658 AGCAAAAGCGCGTCCATGATGGCGCGATTTCACAAATTCTTCTCAAATAGCATGCTGCTTATAGC
131 AGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTACTTATAGC
* * * * *
55558723 GTTGTTTTATACCATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGACC
196 ATTGTTTTAAACCATTTGCTCAGAAAAGTCAACTCAAAATTATTTTTCCACGACC
* * * *
55558778 TACTATAGTAAAAGCGCGTCCACGTGGGCGCGACTTCACAAACTCTTCTTATAAATCATTCTGCT
1 TACTATAGCAAAAGCGCGTCCACGTGGGCGCGACTTCACAAAATCTTCTCATAAATCATCCTGCT
*
55558843 TGAAGCGTTTTTAAACTATTTGGTCAAAAACGTCAACTCGAAATTATTTCTTCCAGGACCAACTG
66 TGAAGCGATTTTAAACTATTTGGTCAAAAACGTCAACTCGAAATTATTT-TTCCAGGACCAACTG
*
55558908 TAGTAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCACAA-AGCATCCTACTTGA-
130 TAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCA-AATAGCATCCTACTT-AT
* * *
55558971 AGCATT-TTTTAAACTATTTGCTCAGAAAAGTCAAGTCGAAATTATTTTTCCACGACC
193 AGCATTGTTTTAAACCATTTGCTCAGAAAAGTCAACTCAAAATTATTTTTCCACGACC
* * * * * *
55559028 TACTGTAGCAAAATCGCGTACATGTGGGCGCAACTTCA-AAAATCCTTCTGATAAATCATCCTGC
1 TACTATAGCAAAAGCGCGTCCACGTGGGCGCGACTTCACAAAAT-CTTCTCATAAATCATCCTGC
55559092 TT
65 TT
55559094 TGATTTTATC
Statistics
Matches: 277, Mismatches: 35, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
249 4 0.01
250 198 0.71
251 72 0.26
252 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (250 bp):
TACTATAGCAAAAGCGCGTCCACGTGGGCGCGACTTCACAAAATCTTCTCATAAATCATCCTGCT
TGAAGCGATTTTAAACTATTTGGTCAAAAACGTCAACTCGAAATTATTTTTCCAGGACCAACTGT
AGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTACTTATAGC
ATTGTTTTAAACCATTTGCTCAGAAAAGTCAACTCAAAATTATTTTTCCACGACC
Found at i:55559638 original size:45 final size:45
Alignment explanation
Indices: 55559584--55559671 Score: 113
Period size: 45 Copynumber: 2.0 Consensus size: 45
55559574 TACACAAACG
* * *
55559584 AAGACAATAATAAGAGTACAAATAAAAATATGGGGAACAATAATA
1 AAGACAATAATAACAATACAAATAAAAATATGGAGAACAATAATA
* * * *
55559629 AAGAGAATAATAACAATATAAATAATAATATGGAGAATAATAA
1 AAGACAATAATAACAATACAAATAAAAATATGGAGAACAATAA
55559672 GAGTGATATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.61, C:0.05, G:0.14, T:0.20
Consensus pattern (45 bp):
AAGACAATAATAACAATACAAATAAAAATATGGAGAACAATAATA
Found at i:55563109 original size:20 final size:20
Alignment explanation
Indices: 55563084--55563122 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
55563074 TGAGTGCAAA
*
55563084 ATTAAAAAATTTAAAAAATT
1 ATTAAAAAAGTTAAAAAATT
*
55563104 ATTAAAAAAGTTATAAAAT
1 ATTAAAAAAGTTAAAAAAT
55563123 ATATAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
ATTAAAAAAGTTAAAAAATT
Found at i:55564184 original size:40 final size:41
Alignment explanation
Indices: 55564101--55564224 Score: 173
Period size: 39 Copynumber: 3.0 Consensus size: 41
55564091 AATTTATTTT
*
55564101 AAAAATTAAAAAAATTTATTTTAAAAATATTTTAAAATT-AAA
1 AAAAATT--AAAAATGTATTTTAAAAATATTTTAAAATTAAAA
55564143 AAAAATT-AAAATGTATTTTAAAAATATTTTAAAATTAAAA
1 AAAAATTAAAAATGTATTTTAAAAATATTTTAAAATTAAAA
* * *
55564183 AAAATTTAAAAAAGTATTTTAAAAGTA-TTTAAAATTAAAA
1 AAAAATTAAAAATGTATTTTAAAAATATTTTAAAATTAAAA
55564223 AA
1 AA
55564225 TAAAAATATT
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
39 28 0.37
40 24 0.32
41 17 0.22
42 7 0.09
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (41 bp):
AAAAATTAAAAATGTATTTTAAAAATATTTTAAAATTAAAA
Found at i:55564217 original size:30 final size:29
Alignment explanation
Indices: 55564157--55564226 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
55564147 ATTAAAATGT
* *
55564157 ATTTTAAAAATATTTTAAAATTAAAAAAA
1 ATTTAAAAAATATTTTAAAAGTAAAAAAA
***
55564186 ATTTAAAAAAGTATTTTAAAAGTATTTAAA
1 ATTTAAAAAA-TATTTTAAAAGTAAAAAAA
55564216 A-TTAAAAAATA
1 ATTTAAAAAATA
55564227 AAAATATTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
28 2 0.06
29 17 0.49
30 16 0.46
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (29 bp):
ATTTAAAAAATATTTTAAAAGTAAAAAAA
Found at i:55566111 original size:17 final size:18
Alignment explanation
Indices: 55566089--55566125 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
55566079 CTTTCATTCC
55566089 CTTTCACA-AAAAAAAAT
1 CTTTCACAGAAAAAAAAT
*
55566106 CTTTCAGAGAAAAAAAAT
1 CTTTCACAGAAAAAAAAT
55566124 CT
1 CT
55566126 AGAACTCTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.54, C:0.16, G:0.05, T:0.24
Consensus pattern (18 bp):
CTTTCACAGAAAAAAAAT
Found at i:55567082 original size:109 final size:106
Alignment explanation
Indices: 55566907--55567111 Score: 284
Period size: 109 Copynumber: 1.9 Consensus size: 106
55566897 TGGATTAAGA
* ** * *
55566907 TTTAAGAGAATATTTGACTATTTGGTCAAATGAGAAATCGAAACCCAGCACATTAGGGCACATTT
1 TTTAAAAGAATATTTGACTATTTGGTCAAAAAAAAAATCGAAACCCAGCACATTAGGACACATTT
* *
55566972 TCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTTGAAAT
66 TCTCGAATTT-CCAAAAGCAAAACATTACCTTATTTTGAAAT
* * *
55567014 TTTAAAAGGATATTTGGCTATTTGGTCGAACAAAAAAAATCGAAACCCAGCACATTAGGACACGT
1 TTTAAAAGAATATTTGACTATTTGGTC-AA-AAAAAAAATCGAAACCCAGCACATTAGGACACAT
*
55567079 TTTCTCGAATTTCCAAAAGCAAAATATTACCTT
64 TTTCTCGAATTTCCAAAAGCAAAACATTACCTT
55567112 TGTTATTTTT
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
107 24 0.28
108 20 0.24
109 41 0.48
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (106 bp):
TTTAAAAGAATATTTGACTATTTGGTCAAAAAAAAAATCGAAACCCAGCACATTAGGACACATTT
TCTCGAATTTCCAAAAGCAAAACATTACCTTATTTTGAAAT
Found at i:55567883 original size:3 final size:3
Alignment explanation
Indices: 55567875--55567969 Score: 75
Period size: 3 Copynumber: 30.7 Consensus size: 3
55567865 TAAGTGGGTA
* * * *
55567875 AAT AAT AAT AAT AAGG AA- AGT AAT AAT AAT AAAT GCAAT AAC AAG AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT -AAT --AAT AAT AAT AAT
* * **
55567923 AAT AAT CAT AAT AAG CTT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
55567970 AAGGATTAGA
Statistics
Matches: 73, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
2 1 0.01
3 64 0.88
4 5 0.07
5 3 0.04
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:55569625 original size:110 final size:111
Alignment explanation
Indices: 55569473--55569675 Score: 300
Period size: 110 Copynumber: 1.8 Consensus size: 111
55569463 TCTGTTCCGT
* * * *
55569473 TGCAACTTCAGAAAGATAAGATCTGTGGCTCTTCGAGGAAACATTTGCTATCTT-TCTGCTATAC
1 TGCAACTTCAGAAAGATAAGATCTGTGGCTCTTCAAGAAAACATTTACTATCTTATCTGCTACAC
* * *
55569537 TGCAACTTTAGTGAGATAAGACTTGTTATGGTGTAATCCACTCTAC
66 TACAACCTCAGTGAGATAAGACTTGTTATGGTGTAATCCACTCTAC
*
55569583 TGCAACTTCAGAGAGATAAGATCTGTGGCTCTTCAAGAAAACATTTACTATCTTCAGTCTGCTAC
1 TGCAACTTCAGAAAGATAAGATCTGTGGCTCTTCAAGAAAACATTTACTATCTT-A-TCTGCTAC
*
55569648 ATTACAACCTCAGTGAGATAAGACTTGT
64 ACTACAACCTCAGTGAGATAAGACTTGT
55569676 AGCTTCAACT
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
110 50 0.62
113 31 0.38
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (111 bp):
TGCAACTTCAGAAAGATAAGATCTGTGGCTCTTCAAGAAAACATTTACTATCTTATCTGCTACAC
TACAACCTCAGTGAGATAAGACTTGTTATGGTGTAATCCACTCTAC
Found at i:55570119 original size:128 final size:128
Alignment explanation
Indices: 55569702--55570103 Score: 626
Period size: 128 Copynumber: 3.1 Consensus size: 128
55569692 ACTGCAACTT
* *
55569702 CAGGGAAATAGGATGTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCATT
1 CAGGGAGATAGGATTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTC-TT
* *
55569767 -GATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGAC
65 CGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
* * * * * *
55569830 TAGGGAAATAGGACTTATGGCTTAAATCTGCTTCATTACTCTTGAAGATAAGATTTACCGTCTTC
1 CAGGGAGATAGGATTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCTTC
* * * *
55569895 GATCTGCACCGTTACTGCTTAAGGAGACAATATCTGTAATTTCCAACCTACTCCACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
* *
55569958 CAGGGAGATGGGATTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCATCTTC
1 CAGGGAGATAGGATTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCTTC
* *
55570023 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACACCACTGTTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
55570086 CAGGGAGATAGGATTTGT
1 CAGGGAGATAGGATTTGT
55570104 AACTTCGATC
Statistics
Matches: 246, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
127 2 0.01
128 244 0.99
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (128 bp):
CAGGGAGATAGGATTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCTTC
GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
Found at i:55570167 original size:88 final size:88
Alignment explanation
Indices: 55570106--55571033 Score: 1270
Period size: 88 Copynumber: 10.6 Consensus size: 88
55570096 GGATTTGTAA
* *
55570106 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTATTGTCCTCAACCAGCTCCACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
* **
55570171 ACCGAGGGAGGCAAGGCTTGCAT
66 ACCGAGGGAGGCAAGGTTTGTGT
* * * * *
55570194 CTTCGATCTGCTTTGCTGTCAATGCAGGAAAG-AAG-TTTCGCTGTCTTCAACCAGCTCCACCAC
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT-GTTGTCTTCAACCAGCTCCACTAC
*
55570257 AACCGAGAGAGGCAAGGTTTGTGT
65 AACCGAGGGAGGCAAGGTTTGTGT
* * * * *
55570281 CTTCGACCTTCTTCGCTGTCAATACAGGAAGGCAAGATCTATTGTCTTCAACCATCTCCACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
*
55570346 ACCGAGGGAGGCAAGGCTTGTGT
66 ACCGAGGGAGGCAAGGTTTGTGT
* * *
55570369 CTTCGATCCGCTTCGCTGTCAATACAGGAAGGCAAGATATGTTGTCTTCAACCAGCTCCACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
*
55570434 ACCGAGGGAGGCAAGGCTTGTGT
66 ACCGAGGGAGGCAAGGTTTGTGT
* * * * *
55570457 CTTCGATCCGCTTCGCTGTCGATTCAGGAAGGCAAGATCTGTTGTCATCAACCAGCTCTACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
*
55570522 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGGGAGGCAAGGTTTGTGT
** * *
55570545 CTTCGATCTGCTTCATTGTCAATGCAGGAAGGCAAGATCTGTTTTCTTCAACCAGCTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
* *
55570610 ACCGAGAGAAGCAAGGTTTGTGT
66 ACCGAGGGAGGCAAGGTTTGTGT
* * **
55570633 CTTCGATCTGCTTCGCTGTCAATACAGGAAGGAAAGATCTGTTGTCTTCAACCAGCTCTGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
* * *
55570698 ACTGAGAGAGGCAAGGTTTGCGT
66 ACCGAGGGAGGCAAGGTTTGTGT
*
55570721 CTTCCATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGA-TAC
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCC-ACTAC
*
55570785 AACCGAGAGAGGCAAGGTTTGTGT
65 AACCGAGGGAGGCAAGGTTTGTGT
* * * * *** *
55570809 CTTGGATCTTCTTCGCTGTCAATGCAGGAAGGTAAGATCTGTTGTCTTCAACCAGTTTTGCGACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
*
55570874 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGGGAGGCAAGGTTTGTGT
* * * * * *
55570897 CTTCGATCTACTTCGCTGTCAATGTAGGAAGGAAATATATGTTGTCTTCAACCAGCTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
* *
55570962 ACCGAGAGAGGCAAGG-TTATGT
66 ACCGAGGGAGGCAAGGTTTGTGT
*
55570984 CTTTGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCA
55571034 TTGATCTGTT
Statistics
Matches: 747, Mismatches: 88, Indels: 11
0.88 0.10 0.01
Matches are distributed among these distances:
86 2 0.00
87 119 0.16
88 624 0.84
89 2 0.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (88 bp):
CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
ACCGAGGGAGGCAAGGTTTGTGT
Found at i:55570329 original size:45 final size:43
Alignment explanation
Indices: 55570278--55570502 Score: 120
Period size: 44 Copynumber: 5.1 Consensus size: 43
55570268 GCAAGGTTTG
55570278 TGTCTTCGACCTTCTTCGCTGTCAATACAGGAAGGCAAGATCTAT
1 TGTCTTCGACC-TCTTCGCTGTCAATACAGGAAGGCAAGATCT-T
* * * * * * *
55570323 TGTCTTCAACCATCTCCACT-ACAA-CCGAGGGAGGCAAG-GCTT
1 TGTCTTCGACC-TCTTCGCTGTCAATAC-AGGAAGGCAAGATCTT
* *
55570365 GTGTCTTCGATCCGCTTCGCTGTCAATACAGGAAGGCAAGATATGT
1 -TGTCTTCGA-CCTCTTCGCTGTCAATACAGGAAGGCAAGATCT-T
* * * * * * * *
55570411 TGTCTTCAACCAGCTCCACT-ACAA-CCGAGGGAGGCAAG-GCTT
1 TGTCTTCGACC-TCTTCGCTGTCAATAC-AGGAAGGCAAGATCTT
* * *
55570453 GTGTCTTCGATCCGCTTCGCTGTCGATTCAGGAAGGCAAGATCTGT
1 -TGTCTTCGA-CCTCTTCGCTGTCAATACAGGAAGGCAAGATCT-T
55570499 TGTC
1 TGTC
55570503 ATCAACCAGC
Statistics
Matches: 132, Mismatches: 33, Indels: 30
0.68 0.17 0.15
Matches are distributed among these distances:
42 2 0.02
43 32 0.24
44 57 0.43
45 39 0.30
46 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (43 bp):
TGTCTTCGACCTCTTCGCTGTCAATACAGGAAGGCAAGATCTT
Found at i:55572279 original size:7 final size:7
Alignment explanation
Indices: 55572266--55572306 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
55572256 TTAGCCTCTC
55572266 CATTTTT
1 CATTTTT
*
55572273 TATTTTT
1 CATTTTT
*
55572280 TATTTTT
1 CATTTTT
55572287 CATTTTT
1 CATTTTT
55572294 CA-TTTT
1 CATTTTT
55572300 CATTTTT
1 CATTTTT
55572307 TTGGGGCTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 6 0.19
7 25 0.81
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.76
Consensus pattern (7 bp):
CATTTTT
Found at i:55575444 original size:19 final size:17
Alignment explanation
Indices: 55575422--55575464 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 17
55575412 GTGAAATTTG
55575422 ATGCATGCAATGAAATGTA
1 ATGCATGC-ATGAAATG-A
55575441 ATGCAGATGCATGAAATGA
1 ATGC--ATGCATGAAATGA
55575460 ATGCA
1 ATGCA
55575465 AAAAGAGACG
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 1 0.05
19 9 0.41
20 8 0.36
21 4 0.18
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (17 bp):
ATGCATGCATGAAATGA
Found at i:55577588 original size:25 final size:27
Alignment explanation
Indices: 55577560--55577620 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
55577550 AATTATAAAT
*
55577560 TATAAAATATATG-A-ATGTATGTACA
1 TATAAAATATATGCATATCTATGTACA
* *
55577585 TATAAAAAATATGCATATCTATGTATA
1 TATAAAATATATGCATATCTATGTACA
55577612 TATATAAAT
1 TATA-AAAT
55577621 TATAAAGCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 12 0.41
26 1 0.03
27 13 0.45
28 3 0.10
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (27 bp):
TATAAAATATATGCATATCTATGTACA
Found at i:55577836 original size:3 final size:3
Alignment explanation
Indices: 55577828--55577937 Score: 105
Period size: 3 Copynumber: 35.7 Consensus size: 3
55577818 TAAGTGGGTA
* * * *
55577828 AAT AAT AAT AAT AAGG AA- AGT AAT AAT AAT AAAT GCAAT AAC AAG AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT -AAT --AAT AAT AAT AAT
* * **
55577876 AAT AAT CAT AAT AAG CTT 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
55577924 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
55577938 AAGGATTAGA
Statistics
Matches: 88, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
2 1 0.01
3 79 0.90
4 5 0.06
5 3 0.03
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:55580137 original size:98 final size:94
Alignment explanation
Indices: 55579920--55580139 Score: 255
Period size: 94 Copynumber: 2.3 Consensus size: 94
55579910 AAATTATGTT
** *
55579920 ATTAGAAAGGAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTGTATAAGTTATC
1 ATTAGAAATTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTTATC
55579985 TAAAATTAGAAATTGATGTGTACTTAGAA
66 TAAAATTAGAAATTGATGTGTACTTAGAA
* ** *
55580014 ATTAGAAATTAATATTAAACGAGTTATGTAATT-AGAAATTTTATCTTAATATTATTTAAGTTAA
1 ATTAGAAATTAATATTATATAAGTTATGTAATTCA-AAATTTTATCTTAATATTATATAAGTT-A
* *
55580078 TTTTATGTAATTAGAAATTGATGTGTGA-TTAGAA
64 -TCTA--AAATTAGAAATTGATGTGT-ACTTAGAA
** **
55580112 ATTTTATCTTAATATTATATAAGTTATG
1 ATTAGAAATTAATATTATATAAGTTATG
55580140 AAGTGTCCTG
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
93 1 0.01
94 53 0.51
95 1 0.01
96 3 0.03
98 45 0.43
99 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (94 bp):
ATTAGAAATTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTTATC
TAAAATTAGAAATTGATGTGTACTTAGAA
Found at i:55582365 original size:72 final size:72
Alignment explanation
Indices: 55582286--55582510 Score: 201
Period size: 72 Copynumber: 3.1 Consensus size: 72
55582276 ATAAAACATA
55582286 TTTGCGGCGCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCATA
1 TTTGCGGCGCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCATA
55582351 ATACACT
66 ATACACT
** * * * * ** *
55582358 TTTGCGGCG-TTTACAAAAAAACACCACAACTTATATAGA-G--AAAATA-GCACCGTTTATGTA
1 TTTGCGGCGCTTTA-AGGAAAGCACCACTA--TAGA-AAATGCCAAACGACGCA--GTTTCT-TA
** *
55582418 AAACATAAAACA-T
59 ACTCATAATACACT
* * *
55582431 ATTTGCGGTGCTTTAAGGAAAGCGCCACTATAGACAATGCCAAACGACGCAGTTTCTTAACTCAT
1 -TTTGCGGCGCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCAT
55582496 AATACACT
65 AATACACT
55582504 TTTGCGG
1 TTTGCGG
55582511 TGTTTACAAA
Statistics
Matches: 112, Mismatches: 27, Indels: 28
0.67 0.16 0.17
Matches are distributed among these distances:
71 8 0.07
72 46 0.41
73 12 0.11
74 37 0.33
75 9 0.08
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.26
Consensus pattern (72 bp):
TTTGCGGCGCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCATA
ATACACT
Found at i:55582385 original size:146 final size:146
Alignment explanation
Indices: 55582229--55582523 Score: 518
Period size: 146 Copynumber: 2.0 Consensus size: 146
55582219 GCGTTTTTAG
* *
55582229 AAAACGCCACAACTTATATAGAGAAAACGGCACCATTTATGTAAAACATAAAACATATTTGCGGC
1 AAAACACCACAACTTATATAGAGAAAACAGCACCATTTATGTAAAACATAAAACATATTTGCGGC
55582294 GCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCATAATACACTT
66 GCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCATAATACACTT
55582359 TTGCGGCGTTTACAAA
131 TTGCGGCGTTTACAAA
* * *
55582375 AAAACACCACAACTTATATAGAGAAAATAGCACCGTTTATGTAAAACATAAAACATATTTGCGGT
1 AAAACACCACAACTTATATAGAGAAAACAGCACCATTTATGTAAAACATAAAACATATTTGCGGC
* *
55582440 GCTTTAAGGAAAGCGCCACTATAGACAATGCCAAACGACGCAGTTTCTTAACTCATAATACACTT
66 GCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCATAATACACTT
*
55582505 TTGCGGTGTTTACAAA
131 TTGCGGCGTTTACAAA
55582521 AAA
1 AAA
55582524 GCGCCACCAA
Statistics
Matches: 141, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
146 141 1.00
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (146 bp):
AAAACACCACAACTTATATAGAGAAAACAGCACCATTTATGTAAAACATAAAACATATTTGCGGC
GCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCATAATACACTT
TTGCGGCGTTTACAAA
Found at i:55583108 original size:14 final size:14
Alignment explanation
Indices: 55583065--55583109 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
55583055 CGTAAATCTT
**
55583065 AAACCCCAAACTAT
1 AAACCCCAAACTCC
*
55583079 AAACCCTAAACTCC
1 AAACCCCAAACTCC
*
55583093 AAACCCCAAACCCC
1 AAACCCCAAACTCC
55583107 AAA
1 AAA
55583110 TTGTAAATCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.49, C:0.42, G:0.00, T:0.09
Consensus pattern (14 bp):
AAACCCCAAACTCC
Found at i:55583318 original size:14 final size:13
Alignment explanation
Indices: 55583295--55583343 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
55583285 AAAACTAGCC
*
55583295 AAACCCTAAAGTCT
1 AAACCATAAA-TCT
55583309 AAACCATAAATCAT
1 AAACCATAAATC-T
55583323 AAACCAT-AATCCT
1 AAACCATAAAT-CT
55583336 AAACCATA
1 AAACCATA
55583344 TCTTTGGGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 13 0.42
14 18 0.58
ACGTcount: A:0.51, C:0.27, G:0.02, T:0.20
Consensus pattern (13 bp):
AAACCATAAATCT
Found at i:55583338 original size:13 final size:13
Alignment explanation
Indices: 55583307--55583343 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
55583297 ACCCTAAAGT
55583307 CTAAACCATAAATC
1 CTAAACCAT-AATC
*
55583321 ATAAACCATAATC
1 CTAAACCATAATC
55583334 CTAAACCATA
1 CTAAACCATA
55583344 TCTTTGGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (13 bp):
CTAAACCATAATC
Found at i:55584025 original size:114 final size:114
Alignment explanation
Indices: 55583727--55584246 Score: 747
Period size: 114 Copynumber: 4.6 Consensus size: 114
55583717 AATTGCTCTA
* * *
55583727 TAGCGGCATTTTTACATAAGCGCCACCAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGG
1 TAGCGGCGTTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGG
* * * *
55583792 TTAAGATATTTTGCGGCGTTTTTTATAAGGCGCCGCTAATACTGTGCTT
66 TTAAGATATTTTGCGGCGCTTTTTATAATGCACCGCTAATACTATGCTT
55583841 TAGCGGCGTTTTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTG
1 TAGCGGCGTTTTTT-CATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTG
* * * * *
55583906 ATTAAGCTATTTTGCGACGCTTTTTATAATGCTCCGCTAATACTAAGCTT
65 GTTAAGATATTTTGCGGCGCTTTTTATAATGCACCGCTAATACTATGCTT
* * *
55583956 TAGCGGCGTTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACAAAACGTTGTGTTTTGG
1 TAGCGGCGTTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGG
55584021 TTAAGATATTTTGCGGCGCTTTTTATAATGCACCGCTAATAC-AGTGCTT
66 TTAAGATATTTTGCGGCGCTTTTTATAATGCACCGCTAATACTA-TGCTT
* * * * *
55584070 TAGCAGCGATTTTTCATAAGCACAACTAGTTCTAATATACCTCAAGACCAAACGCTGCGTTTTGG
1 TAGCGGCGTTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGG
* *
55584135 TTAAGATTTTTTGCGGCG-TTTTTATAATGCACCGCTAATACTCTGCTT
66 TTAAGATATTTTGCGGCGCTTTTTATAATGCACCGCTAATACTATGCTT
* * * * * * *
55584183 TAACGGTGTTTTTTCATAAGCACTACTAAATCTAATACACCTCAAGACCAAACGATGCGTTTTG
1 TAGCGGCGTTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTG
55584247 TCAGCATTAT
Statistics
Matches: 365, Mismatches: 38, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
113 84 0.23
114 176 0.48
115 105 0.29
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.34
Consensus pattern (114 bp):
TAGCGGCGTTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGG
TTAAGATATTTTGCGGCGCTTTTTATAATGCACCGCTAATACTATGCTT
Found at i:55584312 original size:227 final size:228
Alignment explanation
Indices: 55583730--55584246 Score: 622
Period size: 229 Copynumber: 2.3 Consensus size: 228
55583720 TGCTCTATAG
* * * * * * * *
55583730 CGGCATTTTTACATAAGCGCCACCAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTA
1 CGGCGTTTTTTCATAAGCACCACTAAATCTAATACACCTCAAGACAAAACGATGCGTTTTGGTTA
* * * * ** * * *
55583795 AGATATTTTGCGGCGTTTTTTATAAGGCGCCGCTAATACTGTGCTTTAGCGGCGTTTTTTGCATA
66 AGATATATTACAGCGCTTTTTATAAAACACCACTAATACAGTGCTTTAGCGGCGTTTTTT-CATA
* * *
55583860 AGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGATTAAGCTATTTTGCGACG
130 AGCACAACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGATTAAGATATTTTGCGACG
* *
55583925 CTTTTTATAATGCTCCGCTAATACTAAGCTTTAG
195 CTTTTTATAATGCACCGCTAATACTAAGCTTTAA
* * * * *
55583959 CGGCGTTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACAAAACGTTGTGTTTTGGTTA
1 CGGCGTTTTTTCATAAGCACCACTAAATCTAATACACCTCAAGACAAAACGATGCGTTTTGGTTA
* * * ** * * *
55584024 AGATATTTTGCGGCGCTTTTTATAATGCACCGCTAATACAGTGCTTTAGCAGCGATTTTTCATAA
66 AGATATATTACAGCGCTTTTTATAAAACACCACTAATACAGTGCTTTAGCGGCGTTTTTTCATAA
* * * *
55584089 GCACAACTAGTTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATTTTTTGCGGCG-
131 GCACAACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGATTAAGATATTTTGCGACGC
**
55584153 TTTTTATAATGCACCGCTAATACTCTGCTTTAA
196 TTTTTATAATGCACCGCTAATACTAAGCTTTAA
* * *
55584186 CGGTGTTTTTTCATAAGCACTACTAAATCTAATACACCTCAAGACCAAACGATGCGTTTTG
1 CGGCGTTTTTTCATAAGCACCACTAAATCTAATACACCTCAAGACAAAACGATGCGTTTTG
55584247 TCAGCATTAT
Statistics
Matches: 257, Mismatches: 31, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
227 82 0.32
228 62 0.24
229 113 0.44
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.34
Consensus pattern (228 bp):
CGGCGTTTTTTCATAAGCACCACTAAATCTAATACACCTCAAGACAAAACGATGCGTTTTGGTTA
AGATATATTACAGCGCTTTTTATAAAACACCACTAATACAGTGCTTTAGCGGCGTTTTTTCATAA
GCACAACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGATTAAGATATTTTGCGACGC
TTTTTATAATGCACCGCTAATACTAAGCTTTAA
Found at i:55585441 original size:8 final size:8
Alignment explanation
Indices: 55585418--55585458 Score: 73
Period size: 8 Copynumber: 5.0 Consensus size: 8
55585408 AATAAATAAG
55585418 TATTATAT
1 TATTATAT
55585426 TAATTATAT
1 T-ATTATAT
55585435 TATTATAT
1 TATTATAT
55585443 TATTATAT
1 TATTATAT
55585451 TATTATAT
1 TATTATAT
55585459 ATATATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 24 0.75
9 8 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TATTATAT
Found at i:55586428 original size:25 final size:24
Alignment explanation
Indices: 55586400--55586462 Score: 94
Period size: 22 Copynumber: 2.6 Consensus size: 24
55586390 ATTCTAGCGC
55586400 GCTCTCTGATTATTAGCACTTCAGT
1 GCTCTCTG-TTATTAGCACTTCAGT
55586425 GCTCTCTG-TA-TAGCACTTCAGT
1 GCTCTCTGTTATTAGCACTTCAGT
55586447 GCTCTCTGTTCATTAG
1 GCTCTCTGTT-ATTAG
55586463 TGCATAACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
22 20 0.57
23 3 0.09
24 1 0.03
25 11 0.31
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.40
Consensus pattern (24 bp):
GCTCTCTGTTATTAGCACTTCAGT
Found at i:55607204 original size:18 final size:18
Alignment explanation
Indices: 55607181--55607217 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
55607171 TCATCATTAT
55607181 TATTAGTATTAT-TATTTA
1 TATTAGT-TTATATATTTA
55607199 TATTAGTTTATATATTTA
1 TATTAGTTTATATATTTA
55607217 T
1 T
55607218 CTACATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TATTAGTTTATATATTTA
Found at i:55610809 original size:38 final size:38
Alignment explanation
Indices: 55610752--55610827 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
55610742 AAGTAAGTAG
* * *
55610752 TTGGGACTTCAACTTGGGTGTTTGAATCGGAAAAGAAA
1 TTGGGACTTCAACTAGGGTGTTTAAACCGGAAAAGAAA
*
55610790 TTGGGACTTCAGCTAGGGTGTTTAAACCGGAAAAGAAA
1 TTGGGACTTCAACTAGGGTGTTTAAACCGGAAAAGAAA
55610828 ATAAAGCAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (38 bp):
TTGGGACTTCAACTAGGGTGTTTAAACCGGAAAAGAAA
Found at i:55613921 original size:25 final size:25
Alignment explanation
Indices: 55613886--55613961 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 25
55613876 CTCTCGAGCT
*
55613886 ATATAACAGGAAGCTCATATGAGTC
1 ATATAACAGGAAGCTCATAAGAGTC
* * ** *
55613911 ATGTAACAGGAAGCTTATCCG-GGC
1 ATATAACAGGAAGCTCATAAGAGTC
55613935 -TATAACAGGAAGCTCATAAGAGTC
1 ATATAACAGGAAGCTCATAAGAGTC
55613959 ATA
1 ATA
55613962 CTCAAGAAGT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
23 16 0.41
24 4 0.10
25 19 0.49
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.22
Consensus pattern (25 bp):
ATATAACAGGAAGCTCATAAGAGTC
Found at i:55621321 original size:20 final size:20
Alignment explanation
Indices: 55621298--55621336 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
55621288 AAAAATCATT
**
55621298 AAAATTATTGAAAAAGTATA
1 AAAATTATAAAAAAAGTATA
55621318 AAAATTATAAAAAAAGTAT
1 AAAATTATAAAAAAAGTAT
55621337 TTTTAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (20 bp):
AAAATTATAAAAAAAGTATA
Found at i:55621330 original size:29 final size:28
Alignment explanation
Indices: 55621261--55621330 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
55621251 AAATTCGAAT
*
55621261 AAATTATAAAATTTATTTTCAAAAATTAA
1 AAATTATAAAAATTA-TTTCAAAAATTAA
* * *
55621290 AAATCATTAAAATTA-TTGAAAAAGTATAA
1 AAATTATAAAAATTATTTCAAAAA-T-TAA
55621319 AAATTATAAAAA
1 AAATTATAAAAA
55621331 AAGTATTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
27 7 0.21
28 1 0.03
29 25 0.76
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (28 bp):
AAATTATAAAAATTATTTCAAAAATTAA
Found at i:55622492 original size:30 final size:30
Alignment explanation
Indices: 55622446--55622569 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
55622436 TTTTATTATG
*
55622446 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
55622477 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
55622507 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
55622537 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
55622567 CCA
1 CCA
55622570 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:55622501 original size:15 final size:15
Alignment explanation
Indices: 55622456--55622563 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
55622446 CCAATATCTC
55622456 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
55622471 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
55622486 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
55622501 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
55622516 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
55622531 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
55622546 GATACCCATATCTTT
1 GATACCCATATCTTT
55622561 GAT
1 GAT
55622564 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:55624621 original size:18 final size:21
Alignment explanation
Indices: 55624587--55624645 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
55624577 TTATTTTCAC
55624587 AAATT-AAATACATTA-TTA-
1 AAATTAAAATACATTATTTAG
*
55624605 AAATTAAAATAGA-TATTTAG
1 AAATTAAAATACATTATTTAG
*
55624625 AAATAAAAATA-ATTATTTAG
1 AAATTAAAATACATTATTTAG
55624645 A
1 A
55624646 TTTAATTAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 7 0.20
19 10 0.29
20 18 0.51
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (21 bp):
AAATTAAAATACATTATTTAG
Found at i:55625852 original size:23 final size:23
Alignment explanation
Indices: 55625823--55625871 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
55625813 AAGAAGAAGC
*
55625823 TTTTTTTACTATTTTCTTGCTGT
1 TTTTTTTACTATTTTCTTGCTAT
* * *
55625846 TTTTTTTATTGTTTTGTTGCTAT
1 TTTTTTTACTATTTTCTTGCTAT
55625869 TTT
1 TTT
55625872 CTTCTTCTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.08, C:0.08, G:0.10, T:0.73
Consensus pattern (23 bp):
TTTTTTTACTATTTTCTTGCTAT
Found at i:55630391 original size:29 final size:28
Alignment explanation
Indices: 55630322--55630391 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
55630312 AAATTCGAAT
* *
55630322 AAATTATAAAACTTATTTTTAAAAATTAA
1 AAATTATAAAAATTA-TTTGAAAAATTAA
* *
55630351 AAATCATTAAAATTA-TTGAAAAAGTATAA
1 AAATTATAAAAATTATTTGAAAAA-T-TAA
55630380 AAATTATAAAAA
1 AAATTATAAAAA
55630392 AAAGTATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
27 7 0.21
28 1 0.03
29 25 0.76
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (28 bp):
AAATTATAAAAATTATTTGAAAAATTAA
Found at i:55646685 original size:18 final size:19
Alignment explanation
Indices: 55646662--55646698 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
55646652 AAAATATTTT
*
55646662 TTTATATATAT-AAAAATA
1 TTTATAAATATCAAAAATA
55646680 TTTATAAATATCAAAAATA
1 TTTATAAATATCAAAAATA
55646699 AAATTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
TTTATAAATATCAAAAATA
Found at i:55648502 original size:17 final size:16
Alignment explanation
Indices: 55648477--55648526 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 16
55648467 ATTTATATTT
*
55648477 TAATTATTATTAAATTA
1 TAATCATTA-TAAATTA
55648494 TAATCATTATAAATT-
1 TAATCATTATAAATTA
*
55648509 TAAAT-ATTATATATTA
1 T-AATCATTATAAATTA
55648525 TA
1 TA
55648527 TATTTGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
15 11 0.38
16 10 0.34
17 8 0.28
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATCATTATAAATTA
Found at i:55648524 original size:22 final size:25
Alignment explanation
Indices: 55648490--55648537 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 25
55648480 TTATTATTAA
55648490 ATTATAATCATTATAAATTT-AAAT
1 ATTATAATCATTATAAATTTGAAAT
*
55648514 ATTAT-AT-ATTATATATTTGAAAT
1 ATTATAATCATTATAAATTTGAAAT
55648537 A
1 A
55648538 AATTTCATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 10 0.45
23 7 0.32
24 5 0.23
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
ATTATAATCATTATAAATTTGAAAT
Found at i:55652321 original size:31 final size:33
Alignment explanation
Indices: 55652285--55652345 Score: 99
Period size: 31 Copynumber: 1.9 Consensus size: 33
55652275 TTAAATTTTG
*
55652285 AGTTGGAGTTATTTTGAA-TATG-AATTTTCTT
1 AGTTGGAATTATTTTGAATTATGTAATTTTCTT
55652316 AGTTGGAATTATTTTGAATTATGTAATTTT
1 AGTTGGAATTATTTTGAATTATGTAATTTT
55652346 AGATCTTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 17 0.63
32 4 0.15
33 6 0.22
ACGTcount: A:0.28, C:0.02, G:0.18, T:0.52
Consensus pattern (33 bp):
AGTTGGAATTATTTTGAATTATGTAATTTTCTT
Found at i:55653332 original size:24 final size:24
Alignment explanation
Indices: 55653292--55653340 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
55653282 CAAATAATTT
55653292 AAAAATATAAAATATTCAAAATAAA
1 AAAAATATAAAATATTCAAAA-AAA
55653317 AAAAAT-TATAAA-ATTCAAAAAAA
1 AAAAATATA-AAATATTCAAAAAAA
55653340 A
1 A
55653341 TGAAATACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.17
24 10 0.43
25 9 0.39
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (24 bp):
AAAAATATAAAATATTCAAAAAAA
Found at i:55666064 original size:92 final size:83
Alignment explanation
Indices: 55665886--55666067 Score: 204
Period size: 92 Copynumber: 2.1 Consensus size: 83
55665876 CTTAAGGGCG
* * *
55665886 TAAAAAACCCTCAAACTTTTTCAAAAAAAGTAATTAAGCCTTGTTTTTTTCACTCAATTGGGTAC
1 TAAAAAACCCTCAAACTCTTTCAAAAAAAGCAATTAAGCCTTGTTTTTTTCACTCAATTGGATAC
* *
55665951 TTGAACTTTCAAAATGTA
66 TTGAACTTCCAAAATGCA
* *
55665969 TAAAAAAGGCCCTCAAACTCTTTCAAAAAAAAGCAATTAAGCCCCTACTTTTTTTTTTGCACTTA
1 TAAAAAA--CCCTCAAACTCTTTC-AAAAAAAGCAATTAAG---C--CTTGTTTTTTT-CACTCA
55666034 ATTGGATACTTGAA-TTGCCAAAATGCA
57 ATTGGATACTTGAACTT-CCAAAATGCA
55666061 TAAAAAA
1 TAAAAAA
55666068 AACCCTTTGA
Statistics
Matches: 82, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
83 7 0.09
85 14 0.17
86 15 0.18
89 1 0.01
91 12 0.15
92 33 0.40
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (83 bp):
TAAAAAACCCTCAAACTCTTTCAAAAAAAGCAATTAAGCCTTGTTTTTTTCACTCAATTGGATAC
TTGAACTTCCAAAATGCA
Found at i:55666260 original size:19 final size:19
Alignment explanation
Indices: 55666226--55666274 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
55666216 AAAATTTTAA
*
55666226 TAAAAA-TATAAAAAATATT
1 TAAAAATTAT-AAAAATAGT
55666245 TAAAAATTATAAAAATAGT
1 TAAAAATTATAAAAATAGT
*
55666264 AAAAAATTATA
1 TAAAAATTATA
55666275 TATTTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 24 0.89
20 3 0.11
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
TAAAAATTATAAAAATAGT
Found at i:55666387 original size:20 final size:20
Alignment explanation
Indices: 55666359--55666411 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
55666349 AAGTTTTAAG
55666359 AAAAA-TATAAAAAATGTAA
1 AAAAATTATAAAAAATGTAA
**
55666378 AAAAATTATAAAATTTGTAA
1 AAAAATTATAAAAAATGTAA
55666398 AAAAATTATAAAAA
1 AAAAATTATAAAAA
55666412 TTACCGTACC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 5 0.17
20 25 0.83
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (20 bp):
AAAAATTATAAAAAATGTAA
Found at i:55666655 original size:9 final size:9
Alignment explanation
Indices: 55666622--55666680 Score: 59
Period size: 9 Copynumber: 6.4 Consensus size: 9
55666612 AAAAATACAT
55666622 TTTTTTAATA
1 TTTTTT-ATA
55666632 TTTTTTATGA
1 TTTTTTAT-A
55666642 -TTTTTATA
1 TTTTTTATA
*
55666650 TTTTTTCTAA
1 TTTTTTAT-A
55666660 TTTTTTA-A
1 TTTTTTATA
*
55666668 TTTTTAATA
1 TTTTTTATA
55666677 TTTT
1 TTTT
55666681 ATTAAAGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
8 8 0.19
9 20 0.48
10 14 0.33
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (9 bp):
TTTTTTATA
Found at i:55666685 original size:18 final size:17
Alignment explanation
Indices: 55666623--55666736 Score: 63
Period size: 19 Copynumber: 6.3 Consensus size: 17
55666613 AAAATACATT
55666623 TTTTTAATATTTT-TTATGA
1 TTTTT-ATATTTTATTA--A
*
55666642 TTTTTATATTTTTTCTAA
1 TTTTTATATTTTAT-TAA
*
55666660 TTTTT-TAATTT-TTAA
1 TTTTTATATTTTATTAA
* *
55666675 TATTTTATTAAAGTTTAATAA
1 T-TTTTA-T--ATTTTATTAA
*
55666696 TTTTTATAAGTTTTATTGA
1 TTTTTAT-A-TTTTATTAA
*
55666715 TTTTTATTTTTTATTAA
1 TTTTTATATTTTATTAA
55666732 TTTTT
1 TTTTT
55666737 TTGTCACATG
Statistics
Matches: 78, Mismatches: 8, Indels: 20
0.74 0.08 0.19
Matches are distributed among these distances:
15 4 0.05
16 5 0.06
17 18 0.23
18 16 0.21
19 20 0.26
20 11 0.14
21 4 0.05
ACGTcount: A:0.27, C:0.01, G:0.04, T:0.68
Consensus pattern (17 bp):
TTTTTATATTTTATTAA
Found at i:55666701 original size:10 final size:10
Alignment explanation
Indices: 55666623--55666736 Score: 52
Period size: 10 Copynumber: 12.5 Consensus size: 10
55666613 AAAATACATT
55666623 TTTTTAAT-A
1 TTTTTAATAA
* *
55666632 TTTTTTATGA
1 TTTTTAATAA
55666642 TTTTT-AT-A
1 TTTTTAATAA
**
55666650 TTTTTTCTAA
1 TTTTTAATAA
55666660 TTTTT--TAA
1 TTTTTAATAA
55666668 TTTTTAAT-A
1 TTTTTAATAA
*
55666677 -TTTTATTAA
1 TTTTTAATAA
**
55666686 AGTTTAATAA
1 TTTTTAATAA
55666696 TTTTT-ATAA
1 TTTTTAATAA
* * *
55666705 GTTTTATTGA
1 TTTTTAATAA
55666715 TTTTT-AT--
1 TTTTTAATAA
*
55666722 TTTTTATTAA
1 TTTTTAATAA
55666732 TTTTT
1 TTTTT
55666737 TTGTCACATG
Statistics
Matches: 81, Mismatches: 13, Indels: 21
0.70 0.11 0.18
Matches are distributed among these distances:
7 5 0.06
8 21 0.26
9 21 0.26
10 34 0.42
ACGTcount: A:0.27, C:0.01, G:0.04, T:0.68
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:55666737 original size:18 final size:18
Alignment explanation
Indices: 55666642--55666737 Score: 70
Period size: 18 Copynumber: 5.3 Consensus size: 18
55666632 TTTTTTATGA
**
55666642 TTTTTATATTTTTTCTAAT
1 TTTTTA-ATTTTTAATAAT
55666661 TTTTTAATTTTTAAT-AT
1 TTTTTAATTTTTAATAAT
**
55666678 TTTATTAAAGTTTAATAAT
1 TTT-TTAATTTTTAATAAT
* * *
55666697 TTTTATAAGTTTTATTGA-
1 TTTT-TAATTTTTAATAAT
* *
55666715 TTTTTATTTTTTATTAAT
1 TTTTTAATTTTTAATAAT
55666733 TTTTT
1 TTTTT
55666738 TGTCACATGT
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
17 15 0.24
18 27 0.44
19 20 0.32
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTTAATTTTTAATAAT
Found at i:55667046 original size:87 final size:87
Alignment explanation
Indices: 55666841--55667069 Score: 225
Period size: 87 Copynumber: 2.6 Consensus size: 87
55666831 ATCAAATGGT
* *
55666841 CTTTTTAATGCATTTTGACAA-TTTAAGTACCCAATTGAGTGTAAAAAAAAAGTAAGGGCTTAAT
1 CTTTTTAATGCATTTT-AAAAGTTTAAGTACCTAATTGAGTG-AAAAAAAAAG--AGGGCTTAAT
* *
55666905 TGCTTTTTTTGAAAAAGGTTAAGGGT
62 AGCTTTTTTTGAAAAAGGTTAAGGGC
* * * * *
55666931 CTTTTTGATGCATTTTGAAAGTTCAAGTACCTAATTGAGTGCAAAAAAAAG-GGGCTTTATAGCT
1 CTTTTTAATGCATTTTAAAAGTTTAAGTACCTAATTGAGTGAAAAAAAAAGAGGGCTTAATAGC-
* **
55666995 TTTTTTTTG-AAAATGTTCGGGGGC
65 -TTTTTTTGAAAAAGGTT-AAGGGC
55667019 CTTTTT-ATGCATTTTAAAAGTTTAAGTA-CTAAATTGAGTGGAAAAAGAAAA
1 CTTTTTAATGCATTTTAAAAGTTTAAGTACCT-AATTGAGT-GAAAAA-AAAA
55667070 AGGCAGGAGC
Statistics
Matches: 117, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
86 12 0.10
87 35 0.30
88 22 0.19
89 15 0.13
90 33 0.28
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (87 bp):
CTTTTTAATGCATTTTAAAAGTTTAAGTACCTAATTGAGTGAAAAAAAAAGAGGGCTTAATAGCT
TTTTTTGAAAAAGGTTAAGGGC
Found at i:55688759 original size:16 final size:16
Alignment explanation
Indices: 55688740--55688789 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
55688730 ATATTTAATC
55688740 ATATAATAAATTATTA
1 ATATAATAAATTATTA
55688756 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
55688769 ATTTAATAAAATATTTA
1 ATATAATAAATTA-TTA
55688786 ATAT
1 ATAT
55688790 TGTGATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
13 12 0.44
16 9 0.33
17 6 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:55688764 original size:29 final size:30
Alignment explanation
Indices: 55688732--55688789 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
55688722 ACATATTTAT
* *
55688732 ATTTAATCATATAATAAATTA-TTAATATA
1 ATTTAATAATATAATAAAATATTTAATATA
* *
55688761 ATTTATTAATTTAATAAAATATTTAATAT
1 ATTTAATAATATAATAAAATATTTAATAT
55688790 TGTGATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (30 bp):
ATTTAATAATATAATAAAATATTTAATATA
Found at i:55688874 original size:21 final size:22
Alignment explanation
Indices: 55688832--55688898 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 22
55688822 AACAAAAAAA
*
55688832 ATTAATATTTTAA-GTAATATTC
1 ATTAATATTTTAATG-AAAATTC
*
55688854 -TTAATAATTTAATGAAAATTC
1 ATTAATATTTTAATGAAAATTC
55688875 ATATTAATATTTTAATGATAAATT
1 --ATTAATATTTTAATGA-AAATT
55688899 AGTTTTAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 17 0.46
22 1 0.03
24 14 0.38
25 5 0.14
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (22 bp):
ATTAATATTTTAATGAAAATTC
Found at i:55693292 original size:22 final size:22
Alignment explanation
Indices: 55693264--55693308 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
55693254 GATCCTTAAC
55693264 TTTGAAAGTAATTTAATGAAAT
1 TTTGAAAGTAATTTAATGAAAT
55693286 TTTGAAAGTAATTTAATGAAAT
1 TTTGAAAGTAATTTAATGAAAT
55693308 T
1 T
55693309 CAAGCTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.42
Consensus pattern (22 bp):
TTTGAAAGTAATTTAATGAAAT
Found at i:55693541 original size:26 final size:28
Alignment explanation
Indices: 55693476--55693547 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
55693466 ATAAGAAAAT
* *
55693476 TTATTATTAAGAATTTTATGAAATTATATA
1 TTATTATT-A-AATTATATGAAATAATATA
*
55693506 TTATTATTAAATTATATGTAATAATA-A
1 TTATTATTAAATTATATGAAATAATATA
55693533 TTATT-TTAAATTATA
1 TTATTATTAAATTATA
55693548 CAAATTCATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 10 0.26
27 6 0.15
28 14 0.36
29 1 0.03
30 8 0.21
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (28 bp):
TTATTATTAAATTATATGAAATAATATA
Found at i:55693737 original size:18 final size:17
Alignment explanation
Indices: 55693709--55693743 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
55693699 ATTATTAAGA
*
55693709 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
55693726 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
55693744 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:55693745 original size:28 final size:27
Alignment explanation
Indices: 55693713--55693785 Score: 76
Period size: 28 Copynumber: 2.7 Consensus size: 27
55693703 TTAAGAATTT
55693713 TATTAAATTATATATTTTAATTAAAATA
1 TATTAAATTATATATTTT-ATTAAAATA
* * * *
55693741 TATTAAATAATA-ATTATGTTTAAATA
1 TATTAAATTATATATTTTATTAAAATA
*
55693767 TGATTAAATTATTTATTTT
1 T-ATTAAATTATATATTTT
55693786 TGATAATAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 8 0.22
27 13 0.36
28 15 0.42
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (27 bp):
TATTAAATTATATATTTTATTAAAATA
Found at i:55693954 original size:44 final size:45
Alignment explanation
Indices: 55693905--55693999 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
55693895 TTACACCTCT
* *
55693905 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
55693949 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
55693994 ATTACA
1 ATTACA
55694000 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:55693999 original size:16 final size:16
Alignment explanation
Indices: 55693980--55694031 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
55693970 GATTTGCTAT
* *
55693980 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
55693996 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
55694012 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
55694028 TACA
1 TACA
55694032 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:55704199 original size:16 final size:16
Alignment explanation
Indices: 55704167--55704196 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55704157 AACAGTTTAA
55704167 AAAATAATAGTATAAT
1 AAAATAATAGTATAAT
55704183 AAAATAATA-TATAA
1 AAAATAATAGTATAA
55704197 ATAGGTACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (16 bp):
AAAATAATAGTATAAT
Found at i:55705106 original size:10 final size:10
Alignment explanation
Indices: 55705093--55705122 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
55705083 AAAAATCAAG
55705093 GAAAATCCCC
1 GAAAATCCCC
55705103 GAAAATCCCC
1 GAAAATCCCC
55705113 GAAAATCCCC
1 GAAAATCCCC
55705123 TATGTTCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.40, C:0.40, G:0.10, T:0.10
Consensus pattern (10 bp):
GAAAATCCCC
Found at i:55705963 original size:129 final size:129
Alignment explanation
Indices: 55705743--55706004 Score: 346
Period size: 129 Copynumber: 2.0 Consensus size: 129
55705733 TCTAGTCGGC
* ** * * *
55705743 AAGACTTGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
1 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACCTTAATCCGCCC
* * * * *
55705808 CACTACAACTTCAGGAAGGTAGGATTATCGACCTCAATCTGCTCCACTGCAATCTCAGGGATAT
66 CACTACAACTTCAGGAAGATAAGATTATCGACCTCAATCTGCTACACTGCAACCTCAGGGAGAT
** * *
55705872 AAGACCTGATGCGATCCACTCTGTTGCAACTTCAGAGAGGTAAGATCTATTACCTTAATTCGCCC
1 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACCTTAATCCGCCC
* * *
55705937 CACTACAACTTTA-GAGAGATAAGATTATCGGCTTCAATCTGCTACACTGCAACCTCAGGGAGAT
66 CACTACAACTTCAGGA-AGATAAGATTATCGACCTCAATCTGCTACACTGCAACCTCAGGGAGAT
55706001 AAGA
1 AAGA
55706005 TTTGCTTCTT
Statistics
Matches: 114, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
128 2 0.02
129 112 0.98
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (129 bp):
AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACCTTAATCCGCCC
CACTACAACTTCAGGAAGATAAGATTATCGACCTCAATCTGCTACACTGCAACCTCAGGGAGAT
Found at i:55706016 original size:44 final size:43
Alignment explanation
Indices: 55705968--55706093 Score: 121
Period size: 44 Copynumber: 2.9 Consensus size: 43
55705958 AGATTATCGG
* * *
55705968 CTTCAATCTG-CTACACTGCAACCTCAGGGAGATAAGATTTGCTT
1 CTTCAGTCTGCCT-CACTGCAACTTCAGGGAGATAAGACTTG-TT
** *
55706012 CTTCAGTCTGCCTCACTGTGACTTCAGGGGGATAAGACTTGTT
1 CTTCAGTCTGCCTCACTGCAACTTCAGGGAGATAAGACTTGTT
* * *
55706055 TTCTCAGTC-GTCTCCGCTGCAACTTCAGGGAGATAAGAC
1 CT-TCAGTCTGCCT-CACTGCAACTTCAGGGAGATAAGAC
55706094 CCGATGCGAT
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
43 6 0.09
44 59 0.88
45 2 0.03
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.29
Consensus pattern (43 bp):
CTTCAGTCTGCCTCACTGCAACTTCAGGGAGATAAGACTTGTT
Found at i:55706392 original size:87 final size:87
Alignment explanation
Indices: 55706273--55706535 Score: 427
Period size: 87 Copynumber: 3.0 Consensus size: 87
55706263 ACTTGTAATC
* * * * * *
55706273 TTCGATCTGCTTCACTGTCGACGTAAGAAGGCAAGATCTACTATCTTTAACCAGTTCCACTAAAA
1 TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
55706338 CCAATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * *
55706360 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCAACTACAA
1 TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
55706425 CCGATGGAGGCAAGGCTTTATT
66 CCGATGGAGGCAAGGCTTTGTT
55706447 TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
55706512 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
55706534 TT
1 TT
55706536 TTATCTTCAC
Statistics
Matches: 161, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 161 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (87 bp):
TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:55706481 original size:43 final size:43
Alignment explanation
Indices: 55706345--55706481 Score: 104
Period size: 43 Copynumber: 3.2 Consensus size: 43
55706335 AAACCAATGG
* * *
55706345 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
1 AGGCAAGGCTTTATTTTCGATCTGCTTCACTGTCAACGCAGGA
* * * * * *
55706388 AGGCAAGATCTGCTATCTTT-AACCAGC-TCAACT-ACAAC-CGATGG-
1 AGGCAAG-GCT-TTAT-TTTCGATCTGCTTC-ACTGTCAACGC-A-GGA
55706432 AGGCAAGGCTTTATTTTCGATCTGCTTCACTGTCAACGCAGGA
1 AGGCAAGGCTTTATTTTCGATCTGCTTCACTGTCAACGCAGGA
55706475 AGGCAAG
1 AGGCAAG
55706482 ATCTGCTATC
Statistics
Matches: 68, Mismatches: 15, Indels: 22
0.65 0.14 0.21
Matches are distributed among these distances:
41 3 0.04
42 12 0.18
43 24 0.35
44 16 0.24
45 10 0.15
46 3 0.04
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (43 bp):
AGGCAAGGCTTTATTTTCGATCTGCTTCACTGTCAACGCAGGA
Found at i:55708150 original size:22 final size:20
Alignment explanation
Indices: 55708110--55708150 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
55708100 CGTCTTGGCC
*
55708110 TCTCTTTTTCTTTTCTTTTT
1 TCTCTTTTTCTTTTATTTTT
55708130 TCTCTTTTTCATATTTATTTT
1 TCTCTTTTTC-T-TTTATTTT
55708151 AACTTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (20 bp):
TCTCTTTTTCTTTTATTTTT
Found at i:55719542 original size:13 final size:13
Alignment explanation
Indices: 55719524--55719549 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55719514 TTTTATTTAT
55719524 TTATTCCCACCGG
1 TTATTCCCACCGG
55719537 TTATTCCCACCGG
1 TTATTCCCACCGG
55719550 CTCGATGCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.15, T:0.31
Consensus pattern (13 bp):
TTATTCCCACCGG
Found at i:55724921 original size:49 final size:49
Alignment explanation
Indices: 55724868--55724971 Score: 154
Period size: 49 Copynumber: 2.1 Consensus size: 49
55724858 TCATGTGTTA
* * *
55724868 TAATTTTATACAGTGTTGAATTTTTGATTCATGATATTGAACTCAATTT
1 TAATTTTATAAAGTGTTGAACTTTTGATTCATGATATTAAACTCAATTT
* * *
55724917 TAATTTTATAAAGTGTTTACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTGAACTTTTGATTCATGATATTAAACTCAATTT
55724966 TAATTT
1 TAATTT
55724972 GTTTTTTTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.51
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTGAACTTTTGATTCATGATATTAAACTCAATTT
Found at i:55726473 original size:18 final size:18
Alignment explanation
Indices: 55726452--55726586 Score: 99
Period size: 18 Copynumber: 7.9 Consensus size: 18
55726442 ATACTAAAAA
55726452 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
55726470 TTTTATTAAA--ATATA-
1 TTTTATTAAATTATATAT
* *
55726485 -TTTAAT-AATAAT-TAT
1 TTTTATTAAATTATATAT
* * * *
55726500 TTTAAATTATATTTTATAG
1 TTT-TATTAAATTATATAT
* * *
55726519 TATTA-TATATTAT-GA-
1 TTTTATTAAATTATATAT
*
55726534 TTTTAGTAAATTCATATAT
1 TTTTATTAAATT-ATATAT
55726553 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
55726571 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
55726587 TTAATAATAA
Statistics
Matches: 91, Mismatches: 15, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
13 2 0.02
14 7 0.08
15 6 0.07
16 13 0.14
17 11 0.12
18 37 0.41
19 15 0.16
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:55726559 original size:59 final size:58
Alignment explanation
Indices: 55726372--55726568 Score: 177
Period size: 59 Copynumber: 3.3 Consensus size: 58
55726362 ATTATATTTA
55726372 ATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAT
1 ATAATTA-TTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAT
* * * * * * ** * * *
55726431 A-AGAATATTTAATACTAAAAATTTTATTA-AATTATATATTTTTATTAAAATATATTTA-AT
1 ATA-ATTATTTAA-A-T-TATATTTTA-TAGTATTATATATTATGATTTTAGTAAATTCATAT
55726491 AATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAT
1 -ATAATTA-TTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAT
**
55726551 ATTTTTA-TTAAATTATAT
1 ATAATTATTTAAATTATAT
55726569 ATTTTTATTA
Statistics
Matches: 104, Mismatches: 24, Indels: 22
0.69 0.16 0.15
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 38 0.37
60 6 0.06
61 33 0.32
62 8 0.08
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (58 bp):
ATAATTATTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAT
Found at i:55726840 original size:16 final size:16
Alignment explanation
Indices: 55726819--55726854 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
55726809 AGGATTACCT
55726819 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
55726835 ATTACGCCTCTATTTC
1 ATTACGCCTCTATTCC
55726851 ATTA
1 ATTA
55726855 AAGCGAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.31, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:55729640 original size:68 final size:69
Alignment explanation
Indices: 55729555--55729690 Score: 188
Period size: 69 Copynumber: 2.0 Consensus size: 69
55729545 TTCCCTTGCT
* *
55729555 GTTGATTTCATGTTCTTTT-CTGATTTTTATTTCAG-TTTT-TATGTCATTAAATACTGGTTTAA
1 GTTGATTTCATGCTCTTTTCCT-A-ATTTATTTCAGTTTTTATATGTCATTAAATACTGGTTTAA
55729617 GTTGAA
64 GTTGAA
* * *
55729623 GTTGATTTCATGCTCTTTTCCTAATTTATTTCTGTTTTTATATGTCATTAAATATTTGTTTAAGT
1 GTTGATTTCATGCTCTTTTCCTAATTTATTTCAGTTTTTATATGTCATTAAATACTGGTTTAAGT
55729688 TGA
66 TGA
55729691 CATTATTGTG
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
67 9 0.15
68 23 0.38
69 28 0.47
ACGTcount: A:0.22, C:0.10, G:0.13, T:0.55
Consensus pattern (69 bp):
GTTGATTTCATGCTCTTTTCCTAATTTATTTCAGTTTTTATATGTCATTAAATACTGGTTTAAGT
TGAA
Found at i:55734675 original size:20 final size:20
Alignment explanation
Indices: 55734650--55734699 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
55734640 ACTTACAAGA
*
55734650 TGTATGGGTAGAAGTGGACT
1 TGTATGGGTAGAAATGGACT
55734670 TGTATGGGTAGAAATGGACT
1 TGTATGGGTAGAAATGGACT
*
55734690 TGTATCGGTA
1 TGTATGGGTA
55734700 TAACTAGACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.26, C:0.06, G:0.36, T:0.32
Consensus pattern (20 bp):
TGTATGGGTAGAAATGGACT
Found at i:55735784 original size:91 final size:90
Alignment explanation
Indices: 55735638--55735812 Score: 210
Period size: 91 Copynumber: 1.9 Consensus size: 90
55735628 TGAGAGAGAG
* ** *
55735638 AAATCTTTTCAAAAAAAAAAAAGTTAAGCTCCGGTTTCTTTTCTCTCGCTTGGGTATTTAAACTT
1 AAATCTTTTCAAAAAAAAAAAAGTTAAGCTCCGGTTTCTTTTCACTCAATTGGGTACTTAAACTT
*
55735703 TCACAATACATAAAAAAGAACTTCA
66 TCAAAATACATAAAAAAGAACTTCA
* * * *
55735728 AAAT-TTTTCAAAAAAAAAACAA-TTAAGGCTCTGTTTTTTTTTTCACTCAATTGGGTACTTGAA
1 AAATCTTTTCAAAAAAAAAA-AAGTTAA-GCTCCG-GTTTCTTTTCACTCAATTGGGTACTTAAA
* *
55735791 CTTTCAAAATGCATTAAAAAGA
63 CTTTCAAAATACATAAAAAAGA
55735813 CCCTCAAACT
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
89 19 0.27
90 11 0.15
91 41 0.58
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.35
Consensus pattern (90 bp):
AAATCTTTTCAAAAAAAAAAAAGTTAAGCTCCGGTTTCTTTTCACTCAATTGGGTACTTAAACTT
TCAAAATACATAAAAAAGAACTTCA
Found at i:55735950 original size:6 final size:7
Alignment explanation
Indices: 55735933--55735967 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
55735923 TGACACGTGG
55735933 AAAAAAT
1 AAAAAAT
55735940 AAAAAAT
1 AAAAAAT
55735947 AAAAAAT
1 AAAAAAT
55735954 AAAAAAT
1 AAAAAAT
55735961 ATAAAAA
1 A-AAAAA
55735968 AATTAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 22 0.81
8 5 0.19
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:55735983 original size:28 final size:26
Alignment explanation
Indices: 55735951--55736027 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 26
55735941 AAAAATAAAA
55735951 AATAAAAAATATAAAAAAATTAAATTTT
1 AATAAAAAAT-TAAAAAAATTAAA-TTT
*
55735979 AATAAAAAATTTAAAAAATTTTAAATTT
1 AATAAAAAA-TTAAAAAA-ATTAAATTT
*
55736007 -ATTAAAAATTAGAAAAAATTA
1 AATAAAAAATTA-AAAAAATTA
55736028 GAAAAATTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
26 6 0.14
27 12 0.28
28 19 0.44
29 6 0.14
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (26 bp):
AATAAAAAATTAAAAAAATTAAATTT
Found at i:55736016 original size:27 final size:29
Alignment explanation
Indices: 55735951--55736014 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 29
55735941 AAAAATAAAA
* *
55735951 AATAAAAAATATAAAAAA-ATTAAATTTT
1 AATAAAAAATTTAAAAAATTTTAAATTTT
55735979 AATAAAAAATTTAAAAAATTTTAAA-TTT
1 AATAAAAAATTTAAAAAATTTTAAATTTT
*
55736007 ATTAAAAA
1 AATAAAAA
55736015 TTAGAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 27 0.84
29 5 0.16
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (29 bp):
AATAAAAAATTTAAAAAATTTTAAATTTT
Found at i:55736086 original size:29 final size:30
Alignment explanation
Indices: 55736054--55736137 Score: 77
Period size: 29 Copynumber: 2.8 Consensus size: 30
55736044 TTTAAAAGTA
55736054 TATAGAAATATAGACAAATTATAAAAT-TT-
1 TATAGAAATATAGA-AAATTATAAAATATTG
* *
55736083 TATA-AAGTCGTAAGAAAATTATAAAATATTG
1 TATAGAAAT-AT-AGAAAATTATAAAATATTG
* *
55736114 TAAAGAAATATA-AAATTTATAAAA
1 TATAGAAATATAGAAAATTATAAAA
55736138 AAATATAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
28 3 0.07
29 28 0.64
30 6 0.14
31 4 0.09
32 3 0.07
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.32
Consensus pattern (30 bp):
TATAGAAATATAGAAAATTATAAAATATTG
Found at i:55736141 original size:19 final size:20
Alignment explanation
Indices: 55736097--55736147 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
55736087 AAGTCGTAAG
* *
55736097 AAAATTATAAAATATTGTAA
1 AAAAATATAAAATATTATAA
*
55736117 AGAAATATAAAAT-TTATAA
1 AAAAATATAAAATATTATAA
55736136 AAAAATATAAAA
1 AAAAATATAAAA
55736148 AATATCGTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (20 bp):
AAAAATATAAAATATTATAA
Found at i:55746321 original size:4 final size:4
Alignment explanation
Indices: 55746312--55746345 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
55746302 AAGTTTTATT
55746312 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
55746346 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Done.