Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 248 of 362
Found at i:83764499 original size:39 final size:39
Alignment explanation
Indices: 83764403--83764518 Score: 189
Period size: 39 Copynumber: 3.0 Consensus size: 39
83764393 TAACAACTAT
* *
83764403 CAAAATCTCTCAACTATTACT-AATTTCCTATTGGAAAC
1 CAAAATCTCTCAACTATCACTAAATTTTCTATTGGAAAC
*
83764441 CAAAATCTCTCAAATTATCACTAAATTTTCTATTGGAAAC
1 CAAAATCTCTC-AACTATCACTAAATTTTCTATTGGAAAC
83764481 CAAAATCTCTCAACTATCACTAAATTTTCTATTGGAAA
1 CAAAATCTCTCAACTATCACTAAATTTTCTATTGGAAA
83764519 ATCAATTTTG
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
38 11 0.15
39 34 0.47
40 27 0.38
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.34
Consensus pattern (39 bp):
CAAAATCTCTCAACTATCACTAAATTTTCTATTGGAAAC
Found at i:83764542 original size:78 final size:79
Alignment explanation
Indices: 83764460--83764638 Score: 227
Period size: 78 Copynumber: 2.3 Consensus size: 79
83764450 TCAAATTATC
* * * *
83764460 ACTAAATTTTCTATTGGAAACCAAAATCTCTCAACTAT-CACTAAATTTTCTATTGGAAAATCA-
1 ACTAAAATTTCTATTGGAAACCAAAATCTCTCAACTATAC-CTAAAATTCCTATTGAAAAATCAT
*
83764523 ATTTTGTAACAAAAT
65 ATTTTATAACAAAAT
* * *
83764538 ACTAAAATTTCTATTGAAAACCAAAATCTTTCAACTATACCTAAAATTCCTATTGAAAAATGATT
1 ACTAAAATTTCTATTGGAAACCAAAATCTCTCAACTATACCTAAAATTCCTATTGAAAAATCA-T
* *
83764603 TTTTTATAACCAAAT
65 ATTTTATAACAAAAT
*
83764618 ACTAAAATTCCTATTGGAAAC
1 ACTAAAATTTCTATTGGAAAC
83764639 ACACGTTTGT
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
78 54 0.63
79 1 0.01
80 31 0.36
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (79 bp):
ACTAAAATTTCTATTGGAAACCAAAATCTCTCAACTATACCTAAAATTCCTATTGAAAAATCATA
TTTTATAACAAAAT
Found at i:83764582 original size:39 final size:39
Alignment explanation
Indices: 83764403--83764596 Score: 152
Period size: 39 Copynumber: 5.0 Consensus size: 39
83764393 TAACAACTAT
*
83764403 CAAAATCTCTCAACTATTA-CT--AATTTCCTATTGGAAAC
1 CAAAATCTCTCAACTA-TACCTAAAATTT-CTATTGAAAAC
* * *
83764441 CAAAATCTCTCAAAT-TATCACTAAATTTTCTATTGGAAAC
1 CAAAATCTCTCAACTATA-C-CTAAAATTTCTATTGAAAAC
* *
83764481 CAAAATCTCTCAACTAT-CACTAAATTTTCTATTGGAAAAT
1 CAAAATCTCTCAACTATAC-CTAAAATTTCTATT-GAAAAC
* * * *
83764521 C-AATTTTGT-AACAAAATA-CTAAAATTTCTATTGAAAAC
1 CAAAATCTCTCAAC--TATACCTAAAATTTCTATTGAAAAC
* *
83764559 CAAAATCTTTCAACTATACCTAAAATTCCTATTGAAAA
1 CAAAATCTCTCAACTATACCTAAAATTTCTATTGAAAA
83764597 ATGATTTTTT
Statistics
Matches: 127, Mismatches: 16, Indels: 25
0.76 0.10 0.15
Matches are distributed among these distances:
36 2 0.02
38 26 0.20
39 59 0.46
40 35 0.28
41 5 0.04
ACGTcount: A:0.42, C:0.20, G:0.05, T:0.34
Consensus pattern (39 bp):
CAAAATCTCTCAACTATACCTAAAATTTCTATTGAAAAC
Found at i:83764792 original size:22 final size:22
Alignment explanation
Indices: 83764733--83764786 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
83764723 CAAAATTTAA
83764733 TTTTATAATTTGT-A-AAATTGT
1 TTTTATAATTT-TCATAAATTGT
83764754 TTTTATAATTTTCATAAATT-T
1 TTTTATAATTTTCATAAATTGT
*
83764775 TTTTATGATTTT
1 TTTTATAATTTT
83764787 ATATAATACA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 1 0.03
21 24 0.80
22 5 0.17
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.63
Consensus pattern (22 bp):
TTTTATAATTTTCATAAATTGT
Found at i:83765766 original size:16 final size:16
Alignment explanation
Indices: 83765745--83765778 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
83765735 AGTGCTTAGA
83765745 GTTTAT-GGGTTTAGGG
1 GTTTATGGGGTTT-GGG
83765761 GTTTATGGGGTTTGGG
1 GTTTATGGGGTTTGGG
83765777 GT
1 GT
83765779 CAAGGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.09, C:0.00, G:0.47, T:0.44
Consensus pattern (16 bp):
GTTTATGGGGTTTGGG
Found at i:83765882 original size:31 final size:32
Alignment explanation
Indices: 83765833--83765905 Score: 112
Period size: 31 Copynumber: 2.3 Consensus size: 32
83765823 GGTTTAGGCC
83765833 TTTTTTAAAAGTAAATTAAATTAGGGTTTAAGG
1 TTTTTT-AAAGTAAATTAAATTAGGGTTTAAGG
*
83765866 TTTTTTAAA-TAAATTAAATTAGGGTTTAGGG
1 TTTTTTAAAGTAAATTAAATTAGGGTTTAAGG
*
83765897 ATTTTTAAA
1 TTTTTTAAA
83765906 AATAATTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 29 0.76
32 3 0.08
33 6 0.16
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.45
Consensus pattern (32 bp):
TTTTTTAAAGTAAATTAAATTAGGGTTTAAGG
Found at i:83766507 original size:126 final size:125
Alignment explanation
Indices: 83766019--83766517 Score: 551
Period size: 128 Copynumber: 4.0 Consensus size: 125
83766009 TAGTTTCTAA
* * * * * * *
83766019 AAAAAATAATTTTGATAAGGCGGTTCTGAAAAAATAGTGTAAAAAATGTTTCAAGCAGGATGTAC
1 AAAAAATAATTTTAAGAAGACGATTCTGAAAAAATAATGT-AAAAACGTTTCAAGCAGGATGCAC
* * * *
83766084 TGTCAGCAAAAGTACTAAAAAAAGCTCCCACGTGGACGCTC-TTTTCTACAATAGTTTCTG
65 TATCAACAAAAGTACTAAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAATAGTTTTTG
* * * * *
83766144 -AAAAATAATTTTAAGTAGA-TATTTTTGAAAAAATAGTGTAAAAACGCTTCAAGCAGGATGCAC
1 AAAAAATAATTTTAAGAAGACGA-TTCTGAAAAAATAATGTAAAAACGTTTCAAGCAGGATGCAC
* * * * * *
83766207 TATCAACAAAAGT-CTTGAAAAAAGCTCTCACGTGGATGCTATTTTTCTACAGTAGTTTTTG
65 TATCAACAAAAGTAC-TAAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAATAGTTTTTG
* * * *
83766268 AAAAAGTAATTTTGAGAAGACGGTTCTGAAAAAAAAAGTGTAAAAACCTGCTTT-AAGCAGGATG
1 AAAAAATAATTTTAAGAAGACGATTCTGAAAAAATAA-TGTAAAAA-C-G-TTTCAAGCAGGATG
* * * * *
83766332 CACTGTCAACAAAAGTACTAAAAAAAGCTCCCACATGAATGCTCTTTTTCTATATTAGTTTTTG
62 CACTATCAACAAAAGTACTAAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAATAGTTTTTG
* *
83766396 AAAAAATAATTTTAAGAAAACGATTCTGAAAAAATAATGTCAAAAACGTTTCACGCAGGATGCAC
1 AAAAAATAATTTTAAGAAGACGATTCTGAAAAAATAATGT-AAAAACGTTTCAAGCAGGATGCAC
* * *
83766461 TAAT-AGCAAAAGTACTGAAAAAAGATCCCACGTGAACGCTCTTTTTCTACAATAGTT
65 T-ATCAACAAAAGTACTAAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAATAGTT
83766518 ACAGCTTGGC
Statistics
Matches: 312, Mismatches: 49, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
122 1 0.00
123 54 0.17
124 48 0.15
125 30 0.10
126 68 0.22
127 6 0.02
128 102 0.33
129 3 0.01
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (125 bp):
AAAAAATAATTTTAAGAAGACGATTCTGAAAAAATAATGTAAAAACGTTTCAAGCAGGATGCACT
ATCAACAAAAGTACTAAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAATAGTTTTTG
Found at i:83767862 original size:31 final size:31
Alignment explanation
Indices: 83767827--83767889 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
83767817 TCAACCAATC
83767827 CAAAGCACATTCAAATACATTTAAAATATGT
1 CAAAGCACATTCAAATACATTTAAAATATGT
* *
83767858 CAAAGCACGTTTAAATACATTTAAAATATGT
1 CAAAGCACATTCAAATACATTTAAAATATGT
83767889 C
1 C
83767890 TAATTAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.46, C:0.16, G:0.08, T:0.30
Consensus pattern (31 bp):
CAAAGCACATTCAAATACATTTAAAATATGT
Found at i:83770431 original size:40 final size:39
Alignment explanation
Indices: 83770376--83770461 Score: 127
Period size: 40 Copynumber: 2.2 Consensus size: 39
83770366 TTTATTTATA
**
83770376 TAGCCGAAGCTATTTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATTTCAAACCGCACACCAAGTGCCA-TTT
* *
83770416 TAGCCGAAGCTATTTCGAACCGCACACTAAGTGCCATTT
1 TAGCCGAAGCTATTTCAAACCGCACACCAAGTGCCATTT
83770455 TAGCCGA
1 TAGCCGA
83770462 TAAGTCGTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 10 0.24
40 32 0.76
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (39 bp):
TAGCCGAAGCTATTTCAAACCGCACACCAAGTGCCATTT
Found at i:83772244 original size:13 final size:14
Alignment explanation
Indices: 83772220--83772248 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
83772210 GTTAATAGGG
83772220 TTTTCAATTTCAAT
1 TTTTCAATTTCAAT
83772234 TTTTCAA-TTCAAT
1 TTTTCAATTTCAAT
83772247 TT
1 TT
83772249 CAATCAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTCAATTTCAAT
Found at i:83773099 original size:16 final size:16
Alignment explanation
Indices: 83773080--83773118 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
83773070 TTCTTTTATT
83773080 TAATATTATAATATAA
1 TAATATTATAATATAA
*
83773096 TAATCTTATAATATAA
1 TAATATTATAATATAA
*
83773112 TATTATT
1 TAATATT
83773119 TTCTTAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATATTATAATATAA
Found at i:83780051 original size:46 final size:45
Alignment explanation
Indices: 83779992--83780165 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 45
83779982 GTAATTCGCC
* *
83779992 CCTAAGTGAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGCAT
1 CCTAAGTGAACTCGAACTCAACTCAACGAGTTCGGCCGTTCGCAT
* *
83780037 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CC-TAAGTGAACTCGAACTCAACTCAACGAGTTC-G--GCC--GTTCGCAT
* * ** *
83780087 -CTCA-CGAACTCGAACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCTAAGTGAACTCGAACTCAACTCAACGAGTTCGGCCGTTCGCAT
83780130 CCGTAAGTGAACTCGAACTCAACTCAACGAGTTCGG
1 CC-TAAGTGAACTCGAACTCAACTCAACGAGTTCGG
83780166 ATGCTTAACC
Statistics
Matches: 107, Mismatches: 12, Indels: 19
0.78 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 4 0.04
46 58 0.54
47 26 0.24
48 2 0.02
49 4 0.04
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
CCTAAGTGAACTCGAACTCAACTCAACGAGTTCGGCCGTTCGCAT
Found at i:83780108 original size:93 final size:93
Alignment explanation
Indices: 83779999--83780169 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
83779989 GCCCCTAAGT
* ** * *
83779999 GAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
83780064 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
83780092 GAACTCGAACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGTGAACTCGAACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
83780157 CGAGTTCGGATGC
66 CGAGTTCGGATGC
83780170 TTAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:83783492 original size:8 final size:8
Alignment explanation
Indices: 83783479--83783512 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
83783469 TTTTTTTATT
83783479 TAATATAA
1 TAATATAA
*
83783487 TTATATAA
1 TAATATAA
*
83783495 TAATATTA
1 TAATATAA
83783503 TAATATAA
1 TAATATAA
83783511 TA
1 TA
83783513 TTATTTTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
TAATATAA
Found at i:83793363 original size:42 final size:43
Alignment explanation
Indices: 83793299--83793419 Score: 129
Period size: 43 Copynumber: 2.8 Consensus size: 43
83793289 ATCGACTTGA
83793299 GATTTACGTGTAAGACCATGTCTGGGACA-TCAGCATCG-TATAT
1 GATTT-CGTGTAAGACCATGTCTGGGACAGT-AGCATCGATATAT
* * *
83793342 GATTTCGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATTT
1 GATTTCGTGTAAGACCATGTCTGGGACAGTAGCATCGATATAT
* * * * * *
83793385 GATTACATGTAAGACCACGTTTGGAACATTAGCAT
1 GATTTCGTGTAAGACCATGTCTGGGACAGTAGCAT
83793420 TGTACAAGCT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 28 0.43
43 37 0.57
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATGTCTGGGACAGTAGCATCGATATAT
Found at i:83794489 original size:41 final size:40
Alignment explanation
Indices: 83794428--83794513 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
83794418 TATAATCACT
* *
83794428 TTTTATTATATTTTTAATTTGTGTATTGTTTTAAGAATTG
1 TTTTAGTATATTTTTAATTTGTGTATTATTTTAAGAATTG
* * * * *
83794468 TTTTAGTATCATTTTTTATTTGTTTCTTATTTTAATATTTG
1 TTTTAGTAT-ATTTTTAATTTGTGTATTATTTTAAGAATTG
83794509 TTTTA
1 TTTTA
83794514 AATGTATTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.22, C:0.02, G:0.09, T:0.66
Consensus pattern (40 bp):
TTTTAGTATATTTTTAATTTGTGTATTATTTTAAGAATTG
Found at i:83795602 original size:18 final size:18
Alignment explanation
Indices: 83795561--83795603 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
83795551 GACTGGGAAA
* * *
83795561 ATGAAACATATAAGAGTT
1 ATGATACATATAAAAGCT
*
83795579 AAGATACATATAAAAGCT
1 ATGATACATATAAAAGCT
83795597 ATGATAC
1 ATGATAC
83795604 GCACTTGGCA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (18 bp):
ATGATACATATAAAAGCT
Found at i:83797202 original size:28 final size:28
Alignment explanation
Indices: 83797147--83797203 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
83797137 ATTATAAAAT
* *
83797147 AAAAATTAATTAAAATTACATAAATGAA
1 AAAAATTAAATAAAATTACAAAAATGAA
*
83797175 AAAAATTAAATAATATT-CAAAAATTGAA
1 AAAAATTAAATAAAATTACAAAAA-TGAA
83797203 A
1 A
83797204 TTAACCCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (28 bp):
AAAAATTAAATAAAATTACAAAAATGAA
Found at i:83805757 original size:35 final size:35
Alignment explanation
Indices: 83805715--83805786 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
83805705 GTTCATTATG
83805715 TTTTATCATTGAATTTAATTGTCAAGGCTGTTCAT
1 TTTTATCATTGAATTTAATTGTCAAGGCTGTTCAT
83805750 TTTTATCATTGAATTTAATTGTCAAGGCTGTTCAT
1 TTTTATCATTGAATTTAATTGTCAAGGCTGTTCAT
83805785 TT
1 TT
83805787 ATATTGGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.50
Consensus pattern (35 bp):
TTTTATCATTGAATTTAATTGTCAAGGCTGTTCAT
Found at i:83806465 original size:58 final size:61
Alignment explanation
Indices: 83806403--83806542 Score: 171
Period size: 61 Copynumber: 2.3 Consensus size: 61
83806393 TTAATTCATA
* * * *
83806403 TAATAATAATTATATTAAGAATGTTATTAAA-T-TGTA-TATTA-TTTTATTAAATTGTATT
1 TAATAATAATTATATTAA-AATATGATTAAATTATGTATTATTATTTTTATTAAAATATATT
* *
83806461 TAATAATAATTATATTAAAATATGATTAAATTATTTATTTTTATTTTTATTAAAATATATT
1 TAATAATAATTATATTAAAATATGATTAAATTATGTATTATTATTTTTATTAAAATATATT
* *
83806522 TAACAATAATTTTATTAAAAT
1 TAATAATAATTATATTAAAAT
83806543 TTAATAACAA
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
57 10 0.14
58 19 0.27
59 3 0.04
60 4 0.06
61 34 0.49
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (61 bp):
TAATAATAATTATATTAAAATATGATTAAATTATGTATTATTATTTTTATTAAAATATATT
Found at i:83806534 original size:26 final size:25
Alignment explanation
Indices: 83806505--83806555 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
83806495 TTATTTTTAT
*
83806505 TTTTATTAAAATATATTTAACAATAA
1 TTTTATTAAAATATA-ATAACAATAA
*
83806531 TTTTATTAAAATTTAATAACAATAA
1 TTTTATTAAAATATAATAACAATAA
83806556 CAATAATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTTATTAAAATATAATAACAATAA
Found at i:83806690 original size:44 final size:46
Alignment explanation
Indices: 83806636--83806728 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
83806626 TACAACATCT
83806636 ATTTCATTCAACCAAACACAAG-AA-TACT-ATTACAGCTCTATACC
1 ATTTCATTCAACCAAACA-AAGAAATTACTGATTACAGCTCTATACC
* *
83806680 ATTTCATTCAACCAAACAATGAAATTACTGATTACAGCTCTATTCC
1 ATTTCATTCAACCAAACAAAGAAATTACTGATTACAGCTCTATACC
83806726 ATT
1 ATT
83806729 ACAACTTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 2 0.05
44 20 0.45
45 4 0.09
46 18 0.41
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.31
Consensus pattern (46 bp):
ATTTCATTCAACCAAACAAAGAAATTACTGATTACAGCTCTATACC
Found at i:83806731 original size:16 final size:16
Alignment explanation
Indices: 83806710--83806761 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
83806700 GAAATTACTG
*
83806710 ATTACAGCTCTATTCC
1 ATTACAGCTATATTCC
* * *
83806726 ATTACAACTTTATTCA
1 ATTACAGCTATATTCC
83806742 ATTACAGCTATATTCC
1 ATTACAGCTATATTCC
83806758 ATTA
1 ATTA
83806762 TAATAACCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTACAGCTATATTCC
Found at i:83806797 original size:15 final size:15
Alignment explanation
Indices: 83806774--83806809 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
83806764 ATAACCAAAC
*
83806774 ATACGTTTAATATGT
1 ATACCTTTAATATGT
83806789 ATACCTTTAATATGT
1 ATACCTTTAATATGT
83806804 AGTACC
1 A-TACC
83806810 CTTCAGCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (15 bp):
ATACCTTTAATATGT
Found at i:83808830 original size:15 final size:15
Alignment explanation
Indices: 83808810--83808839 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
83808800 TCTCTTTTCT
*
83808810 TTATACAAATAAGCA
1 TTATACAAAGAAGCA
83808825 TTATACAAAGAAGCA
1 TTATACAAAGAAGCA
83808840 AGTACATTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.13, G:0.10, T:0.23
Consensus pattern (15 bp):
TTATACAAAGAAGCA
Found at i:83811103 original size:15 final size:14
Alignment explanation
Indices: 83811065--83811107 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 14
83811055 TGATAAAAAA
83811065 TATAATTTTATTATTT
1 TATAA-TTTA-TATTT
83811081 TAATAATTTATATCTT
1 T-ATAATTTATAT-TT
83811097 TATAATTTATA
1 TATAATTTATA
83811108 AAAAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.52
16 8 0.32
17 4 0.16
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (14 bp):
TATAATTTATATTT
Found at i:83811147 original size:29 final size:30
Alignment explanation
Indices: 83811095--83811155 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
83811085 AATTTATATC
83811095 TTTATAATTTATAAAAAATTAAATCA-AATT
1 TTTATAATTTATAAAAAATTAAAT-ATAATT
*
83811125 TTTA-AATTT-TAAAAATTTAAAATATAATT
1 TTTATAATTTATAAAAAATT-AAATATAATT
83811154 TT
1 TT
83811156 ACTTTCACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 9 0.32
29 15 0.54
30 4 0.14
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (30 bp):
TTTATAATTTATAAAAAATTAAATATAATT
Found at i:83818054 original size:5 final size:5
Alignment explanation
Indices: 83818044--83818075 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
83818034 TTGTGTGTTC
83818044 TTTAT TTTAT TTTA- TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
83818076 TCACTGGCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:83818063 original size:14 final size:14
Alignment explanation
Indices: 83818044--83818074 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
83818034 TTGTGTGTTC
83818044 TTTATTTTATTTTA
1 TTTATTTTATTTTA
83818058 TTTATTTTATTTTA
1 TTTATTTTATTTTA
83818072 TTT
1 TTT
83818075 TTCACTGGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:83818705 original size:18 final size:19
Alignment explanation
Indices: 83818666--83818708 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
83818656 ACAGACTTCA
*
83818666 TAAAAATACAAAATATTAT
1 TAAAAATACAAAACATTAT
*
83818685 TAAAAATTCAAAACATT-T
1 TAAAAATACAAAACATTAT
83818703 TAAAAA
1 TAAAAA
83818709 GTTGATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAAAATACAAAACATTAT
Found at i:83819559 original size:33 final size:33
Alignment explanation
Indices: 83819520--83819585 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
83819510 TGGAGTTCAC
83819520 CCAAACTATAAATGAAAAATGAAAGAATAAATT
1 CCAAACTATAAATGAAAAATGAAAGAATAAATT
83819553 CCAAACTATAAATGAAAAATGAAAGAATAAATT
1 CCAAACTATAAATGAAAAATGAAAGAATAAATT
83819586 ATACTCTCAC
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:0.61, C:0.09, G:0.09, T:0.21
Consensus pattern (33 bp):
CCAAACTATAAATGAAAAATGAAAGAATAAATT
Found at i:83827288 original size:41 final size:40
Alignment explanation
Indices: 83827212--83827297 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
83827202 CAAATACATT
* *
83827212 TAAAACAAATATTAAAACAAGAAACAAATAAAAAATGATAC
1 TAAAACAAATATTAAAACAACAAACAAATAAAAAAT-ATAA
* * * **
83827253 TAAAACAATTCTTAAAACAACACACAAATTGAAAATATAA
1 TAAAACAAATATTAAAACAACAAACAAATAAAAAATATAA
83827293 TAAAA
1 TAAAA
83827298 AGTGATTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.65, C:0.12, G:0.03, T:0.20
Consensus pattern (40 bp):
TAAAACAAATATTAAAACAACAAACAAATAAAAAATATAA
Found at i:83827976 original size:20 final size:19
Alignment explanation
Indices: 83827917--83827979 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
83827907 ATTTAATTAT
*
83827917 ATTTATATTTATATTTT-A
1 ATTTTTATTTATATTTTCA
* **
83827935 ATTTTAATTTTAATATAATCA
1 ATTTTTA-TTT-ATATTTTCA
83827956 ATTTTTATTATATATTTTCA
1 ATTTTTATT-TATATTTTCA
83827976 ATTT
1 ATTT
83827980 GTGTATTGTT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 5 0.15
19 3 0.09
20 18 0.53
21 8 0.24
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTTATTTATATTTTCA
Found at i:83828216 original size:35 final size:36
Alignment explanation
Indices: 83828149--83828235 Score: 131
Period size: 35 Copynumber: 2.4 Consensus size: 36
83828139 TTAACAATTT
* *
83828149 TATTTCGGGCCTGGCTTGCGCAAATTTTTAGGCCCA
1 TATTTCGGGCCAGGCTTGAGCAAATTTTTAGGCCCA
*
83828185 TATTTCGGGCCAGGCTT-AGTAAATTTTTAGGCCCA
1 TATTTCGGGCCAGGCTTGAGCAAATTTTTAGGCCCA
*
83828220 TATTTCGGGCCGGGCT
1 TATTTCGGGCCAGGCT
83828236 AAAAATGGGC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
35 31 0.66
36 16 0.34
ACGTcount: A:0.17, C:0.23, G:0.26, T:0.33
Consensus pattern (36 bp):
TATTTCGGGCCAGGCTTGAGCAAATTTTTAGGCCCA
Found at i:83829425 original size:18 final size:18
Alignment explanation
Indices: 83829402--83829436 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
83829392 CTTCAAAGAA
* *
83829402 TTTTTTTAAAACAATTTC
1 TTTTTTAAAAAAAATTTC
83829420 TTTTTTAAAAAAAATTT
1 TTTTTTAAAAAAAATTT
83829437 ATCTACAACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTTTAAAAAAAATTTC
Found at i:83830830 original size:27 final size:26
Alignment explanation
Indices: 83830791--83830979 Score: 243
Period size: 27 Copynumber: 7.0 Consensus size: 26
83830781 GTTGTTTAAG
83830791 ACCCCGATTTGTAAAATTATCAAAAT
1 ACCCCGATTTGTAAAATTATCAAAAT
* *
83830817 ATCCCCGATTTGTAAAATTACCTAAAT
1 A-CCCCGATTTGTAAAATTATCAAAAT
* *
83830844 ACCCCCAATTTGTAAAATTATCGAAAT
1 A-CCCCGATTTGTAAAATTATCAAAAT
83830871 ACTCCCGATTTGTAAAATTATCAAAAT
1 AC-CCCGATTTGTAAAATTATCAAAAT
* *
83830898 ACCCCCAGTTTGTAAAATTATCAAAGT
1 ACCCCGA-TTTGTAAAATTATCAAAAT
* *
83830925 ACCCCTAGTTTGTAAAATTATTAAAAT
1 ACCCCGA-TTTGTAAAATTATCAAAAT
*
83830952 ACCCCTGATTTGTAAAATTATCGAAAT
1 ACCCC-GATTTGTAAAATTATCAAAAT
83830979 A
1 A
83830980 TTGTTGTAGT
Statistics
Matches: 143, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
26 6 0.04
27 136 0.95
28 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (26 bp):
ACCCCGATTTGTAAAATTATCAAAAT
Found at i:83831009 original size:81 final size:81
Alignment explanation
Indices: 83830793--83831011 Score: 246
Period size: 81 Copynumber: 2.7 Consensus size: 81
83830783 TGTTTAAGAC
* * * * *
83830793 CCCGATTTGTAAAATTATCAAAATATCCCC-GATTTGTAAAATTACCTAAATACCCCCAATTTGT
1 CCCGATTTGTAAAATTATCAAAATACCCCCAG-TGTGTAAAATTATCAAAATACCCCTAATTTGT
*
83830857 AAAATTATCGAAATACT
65 AAAATTATCAAAATACT
* * *
83830874 CCCGATTTGTAAAATTATCAAAATACCCCCAGTTTGTAAAATTATCAAAGTACCCCTAGTTTGTA
1 CCCGATTTGTAAAATTATCAAAATACCCCCAGTGTGTAAAATTATCAAAATACCCCTAATTTGTA
*
83830939 AAATTATTAAAATAC-
66 AAATTATCAAAATACT
* *****
83830954 CCCTGATTTGTAAAATTATCGAAATA-TTGTTGTAGTGTAAAATTATCAAAATACCCCT
1 CCC-GATTTGTAAAATTATCAAAATACCCCCAGT-GTGTAAAATTATCAAAATACCCCT
83831012 GTAGGGTAAA
Statistics
Matches: 119, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
80 5 0.04
81 113 0.95
82 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (81 bp):
CCCGATTTGTAAAATTATCAAAATACCCCCAGTGTGTAAAATTATCAAAATACCCCTAATTTGTA
AAATTATCAAAATACT
Found at i:83831015 original size:27 final size:28
Alignment explanation
Indices: 83830797--83831014 Score: 197
Period size: 27 Copynumber: 8.0 Consensus size: 28
83830787 TAAGACCCCG
83830797 ATTTGTAAAATTATCAAAATATCCCC-G-
1 ATTTGTAAAATTATCAAAATA-CCCCTGT
* * **
83830824 ATTTGTAAAATTACCTAAATACCCC-CA
1 ATTTGTAAAATTATCAAAATACCCCTGT
*
83830851 ATTTGTAAAATTATCGAAATACTCCC-G-
1 ATTTGTAAAATTATCAAAATAC-CCCTGT
*
83830878 ATTTGTAAAATTATCAAAATACCCC--C
1 ATTTGTAAAATTATCAAAATACCCCTGT
*
83830904 AGTTTGTAAAATTATCAAAGTACCCC--T
1 A-TTTGTAAAATTATCAAAATACCCCTGT
*
83830931 AGTTTGTAAAATTATTAAAATACCCCTG-
1 A-TTTGTAAAATTATCAAAATACCCCTGT
* ****
83830959 ATTTGTAAAATTATCGAAATATTGTTGT
1 ATTTGTAAAATTATCAAAATACCCCTGT
*
83830987 A-GTGTAAAATTATCAAAATACCCCTGT
1 ATTTGTAAAATTATCAAAATACCCCTGT
83831014 A
1 A
83831015 GGGTAAAATG
Statistics
Matches: 161, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
26 8 0.05
27 148 0.92
28 5 0.03
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.34
Consensus pattern (28 bp):
ATTTGTAAAATTATCAAAATACCCCTGT
Found at i:83831506 original size:27 final size:27
Alignment explanation
Indices: 83831463--83831524 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
83831453 CTATGTGCCT
* *
83831463 ATCATATTTATTGATGACTCTGTGTCA
1 ATCATATTTACTCATGACTCTGTGTCA
* * *
83831490 ATCATATTTACTCATGATTGTGTGTCG
1 ATCATATTTACTCATGACTCTGTGTCA
*
83831517 ATTATATT
1 ATCATATT
83831525 ACCATCGCTG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.47
Consensus pattern (27 bp):
ATCATATTTACTCATGACTCTGTGTCA
Found at i:83832187 original size:122 final size:121
Alignment explanation
Indices: 83832034--83832278 Score: 445
Period size: 122 Copynumber: 2.0 Consensus size: 121
83832024 TAGATTGGTG
* *
83832034 CTGGGAGGACTTGGAGGTGGCTACGCTACGAACAACTTTAAATTTTCATATTACTTTTACATTAC
1 CTGGGAGGACTCGGAGGTGGCTACACTACGAACAACTTTAAATTTTCATATTACTTTTACATTAC
*
83832099 TTAAGTTACTTTCTTTTTGGGTTTTTTTTGATGTAATAAGGTATTTTCTCTAATTTT
66 TTAAGTTACTTTCTTTTTGGG-TTTTTTTGATGTAATAAGGCATTTTCTCTAATTTT
*
83832156 CTGGGAGGACTCGGAGGTGGCTACACTACGAACAACTTTAAATTTTCGTATTACTTTTACATTAC
1 CTGGGAGGACTCGGAGGTGGCTACACTACGAACAACTTTAAATTTTCATATTACTTTTACATTAC
83832221 TTAAGTTACTTTCTTTTTGGGTTTTTTTGATGTAATAAGGCATTTTCTCTAATTTT
66 TTAAGTTACTTTCTTTTTGGGTTTTTTTGATGTAATAAGGCATTTTCTCTAATTTT
83832277 CT
1 CT
83832279 AGCTTTTAAT
Statistics
Matches: 119, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
121 36 0.30
122 83 0.70
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.45
Consensus pattern (121 bp):
CTGGGAGGACTCGGAGGTGGCTACACTACGAACAACTTTAAATTTTCATATTACTTTTACATTAC
TTAAGTTACTTTCTTTTTGGGTTTTTTTGATGTAATAAGGCATTTTCTCTAATTTT
Found at i:83833882 original size:63 final size:63
Alignment explanation
Indices: 83833748--83833882 Score: 164
Period size: 63 Copynumber: 2.1 Consensus size: 63
83833738 TATCTCTAGA
* * *** *
83833748 AAAGGTGTTGATACGAGGAATGATTGCACGTGCTGTGGTGCTTGTGTAAAATAAATTGGTGTT
1 AAAGGTGTTGATACGAGGAATGATTGCACATGATGTGGTGCTTGTGTAAAATAAACCAGAGTT
* * *
83833811 AAATGTGTTGATGCG-GAGAATGATTGTACATGATGTGGTGCTTGTGTAAAATAAACCAGAGTT
1 AAAGGTGTTGATACGAG-GAATGATTGCACATGATGTGGTGCTTGTGTAAAATAAACCAGAGTT
*
83833874 GAAGGTGTT
1 AAAGGTGTT
83833883 TATGTAAGGA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
62 1 0.02
63 59 0.98
ACGTcount: A:0.29, C:0.07, G:0.31, T:0.33
Consensus pattern (63 bp):
AAAGGTGTTGATACGAGGAATGATTGCACATGATGTGGTGCTTGTGTAAAATAAACCAGAGTT
Found at i:83835711 original size:107 final size:107
Alignment explanation
Indices: 83835565--83835769 Score: 259
Period size: 107 Copynumber: 1.9 Consensus size: 107
83835555 AATATTTAAA
* * * * ** *
83835565 TGTACGACCATAGCTGGGCTATGGCATTTTAGTGAAAAGACCATAATTGGGTTATGGCACTGTGA
1 TGTAAGACCATAGCTGGGCCATGGCATATGAGTGAAAAGACCATAACAGGGTTATGGCACTATGA
** *
83835630 ACATAAGACCATGGTTGGACCATGGCAGTATATATATGTGTG
66 ACATAAGACCATGGCAGGACCATGGCAATATATATATGTGTG
*
83835672 TGTAAGACCATAGCTGGGCCATGGCATCATGA-TTAAAAGACCATAACAGGGTTATGGCACTATG
1 TGTAAGACCATAGCTGGGCCATGGCAT-ATGAGTGAAAAGACCATAACAGGGTTATGGCACTATG
*** *
83835736 AGTGTAAGACCATGGCAGGGCCATGGCAATATAT
65 AACATAAGACCATGGCAGGACCATGGCAATATAT
83835770 GTGTAAGACC
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
107 80 0.98
108 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (107 bp):
TGTAAGACCATAGCTGGGCCATGGCATATGAGTGAAAAGACCATAACAGGGTTATGGCACTATGA
ACATAAGACCATGGCAGGACCATGGCAATATATATATGTGTG
Found at i:83835745 original size:33 final size:33
Alignment explanation
Indices: 83835670--83835782 Score: 97
Period size: 33 Copynumber: 3.4 Consensus size: 33
83835660 TATATATGTG
* *
83835670 TGTGTAAGACCATAGCTGGGCCATGGC-ATCATGA
1 TGTGTAAGACCATAACAGGGCCATGGCAAT-AT-A
** ** *
83835704 T-TAAAAGACCATAACAGGGTTATGGCACTATGA
1 TGTGTAAGACCATAACAGGGCCATGGCAATAT-A
**
83835737 -GTGTAAGACCATGGCAGGGCCATGGCAATATA
1 TGTGTAAGACCATAACAGGGCCATGGCAATATA
83835769 TGTGTAAGACCATA
1 TGTGTAAGACCATA
83835783 GTTGGACTAT
Statistics
Matches: 61, Mismatches: 15, Indels: 7
0.73 0.18 0.08
Matches are distributed among these distances:
32 1 0.02
33 58 0.95
34 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.23
Consensus pattern (33 bp):
TGTGTAAGACCATAACAGGGCCATGGCAATATA
Found at i:83852072 original size:17 final size:17
Alignment explanation
Indices: 83852050--83852102 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
83852040 GTTCGAGGAA
83852050 TTCATCATACAGGAAGT
1 TTCATCATACAGGAAGT
*
83852067 TTCATCATATAGGAA--
1 TTCATCATACAGGAAGT
*
83852082 TTCATCATACAAGAAGT
1 TTCATCATACAGGAAGT
83852099 TTCA
1 TTCA
83852103 CTTCTCTCCC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 13 0.42
17 18 0.58
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (17 bp):
TTCATCATACAGGAAGT
Found at i:83852087 original size:15 final size:15
Alignment explanation
Indices: 83852045--83852092 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
83852035 CTGGAGTTCG
83852045 AGGAATTCATCATAC
1 AGGAATTCATCATAC
*
83852060 AGGAAGTTTCATCATAT
1 AGGAA--TTCATCATAC
83852077 AGGAATTCATCATAC
1 AGGAATTCATCATAC
83852092 A
1 A
83852093 AGAAGTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 15 0.52
17 14 0.48
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.29
Consensus pattern (15 bp):
AGGAATTCATCATAC
Found at i:83853789 original size:13 final size:13
Alignment explanation
Indices: 83853771--83853800 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
83853761 CTAGCAATCA
*
83853771 TGTCACACGGTCG
1 TGTCACACGGGCG
83853784 TGTCACACGGGCG
1 TGTCACACGGGCG
83853797 TGTC
1 TGTC
83853801 CCTGCGGAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.30, G:0.33, T:0.23
Consensus pattern (13 bp):
TGTCACACGGGCG
Found at i:83856443 original size:17 final size:17
Alignment explanation
Indices: 83856421--83856456 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
83856411 AGAATCCGAA
83856421 GACAAACATGAAAAGGG
1 GACAAACATGAAAAGGG
83856438 GACAAACATGAAAAGGG
1 GACAAACATGAAAAGGG
83856455 GA
1 GA
83856457 AATTAACAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.31, T:0.06
Consensus pattern (17 bp):
GACAAACATGAAAAGGG
Found at i:83856766 original size:27 final size:27
Alignment explanation
Indices: 83856728--83856781 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
83856718 TTAAATGTAA
83856728 GACCATAGCTCGGCTATGCCATTTTAG
1 GACCATAGCTCGGCTATGCCATTTTAG
83856755 GACCATAGCTCGGCTATGCCATTTTAG
1 GACCATAGCTCGGCTATGCCATTTTAG
83856782 TGAAAATACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (27 bp):
GACCATAGCTCGGCTATGCCATTTTAG
Found at i:83857470 original size:25 final size:25
Alignment explanation
Indices: 83857436--83857487 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
83857426 TTGTTATCTT
83857436 TATGCTTTTGAGATGTTTTCTTTCA
1 TATGCTTTTGAGATGTTTTCTTTCA
83857461 TATGCTTTTGAGATGTTTTCTTTCA
1 TATGCTTTTGAGATGTTTTCTTTCA
83857486 TA
1 TA
83857488 AATATGAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.17, C:0.12, G:0.15, T:0.56
Consensus pattern (25 bp):
TATGCTTTTGAGATGTTTTCTTTCA
Found at i:83863644 original size:14 final size:13
Alignment explanation
Indices: 83863625--83863658 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
83863615 ATTTGACTTT
83863625 TTCTTAATTATATG
1 TTCTTAATTAT-TG
83863639 TTCTTAATTATTG
1 TTCTTAATTATTG
83863652 TT-TTAAT
1 TTCTTAAT
83863659 ATTCCAGGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.25
13 4 0.20
14 11 0.55
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (13 bp):
TTCTTAATTATTG
Found at i:83868682 original size:46 final size:46
Alignment explanation
Indices: 83868615--83868842 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 46
83868605 AGTGTGCTCT
*
83868615 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
83868661 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
83868707 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
83868753 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
83868799 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
83868843 TCATGTCAAA
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.01
46 169 0.99
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:83870781 original size:22 final size:22
Alignment explanation
Indices: 83870756--83870798 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
83870746 GTGATAATTA
83870756 TACCATTTAAAGAGTTAGTGGT
1 TACCATTTAAAGAGTTAGTGGT
83870778 TACCATTTAAAGAGTTAGTGG
1 TACCATTTAAAGAGTTAGTGG
83870799 GCAAATATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (22 bp):
TACCATTTAAAGAGTTAGTGGT
Found at i:83873877 original size:24 final size:24
Alignment explanation
Indices: 83873850--83873932 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 24
83873840 GCTCTCTTTT
*
83873850 GAGCTTCCCGTTTATTGCTCTTCG
1 GAGCTTCCCGTTAATTGCTCTTCG
* * **
83873874 GAGCTTCCCGATAAATGACTCTTAT
1 GAGCTTCCCGTTAATTG-CTCTTCG
* *
83873899 GAGCTTCCCGTTAATGGCTCTCCG
1 GAGCTTCCCGTTAATTGCTCTTCG
*
83873923 AAGCTTCCCG
1 GAGCTTCCCG
83873933 ATATTGCCAT
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
24 27 0.59
25 19 0.41
ACGTcount: A:0.17, C:0.30, G:0.20, T:0.33
Consensus pattern (24 bp):
GAGCTTCCCGTTAATTGCTCTTCG
Found at i:83873902 original size:25 final size:24
Alignment explanation
Indices: 83873843--83873908 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
83873833 ATTAATGGCT
* * * *
83873843 CTCTTTTGAGCTTCCCGTTTATTG
1 CTCTTATGAGCTTCCCGATAAATG
**
83873867 CTCTTCGGAGCTTCCCGATAAATG
1 CTCTTATGAGCTTCCCGATAAATG
83873891 ACTCTTATGAGCTTCCCG
1 -CTCTTATGAGCTTCCCG
83873909 TTAATGGCTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 19 0.56
25 15 0.44
ACGTcount: A:0.15, C:0.29, G:0.18, T:0.38
Consensus pattern (24 bp):
CTCTTATGAGCTTCCCGATAAATG
Found at i:83880326 original size:22 final size:22
Alignment explanation
Indices: 83880301--83880363 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 22
83880291 AATAATGTCA
83880301 ATTTTCAAAAATAACAAAAAAT
1 ATTTTCAAAAATAACAAAAAAT
* *
83880323 ATTTAATAAAAAAAAAC-AAAAAT
1 ATTT--TCAAAAATAACAAAAAAT
*
83880346 TTTATTCAAAAAT-ACAAA
1 ATT-TTCAAAAATAACAAA
83880364 CTAAGCAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
21 2 0.06
22 12 0.38
23 8 0.25
24 10 0.31
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (22 bp):
ATTTTCAAAAATAACAAAAAAT
Found at i:83880356 original size:21 final size:23
Alignment explanation
Indices: 83880304--83880363 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 23
83880294 AATGTCAATT
83880304 TTCAAAAATAACAAAAAATATTTAA
1 TTCAAAAA-AAC-AAAAATATTTAA
**
83880329 TAAAAAAAAACAAAAAT-TTT-A
1 TTCAAAAAAACAAAAATATTTAA
*
83880350 TTCAAAAATACAAA
1 TTCAAAAAAACAAA
83880364 CTAAGCAAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 12 0.40
22 3 0.10
23 6 0.20
24 3 0.10
25 6 0.20
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (23 bp):
TTCAAAAAAACAAAAATATTTAA
Found at i:83881705 original size:21 final size:21
Alignment explanation
Indices: 83881656--83881707 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
83881646 CAAGTCCCAA
* *
83881656 ACCCTAAACCATAAATCACAT
1 ACCCTAAACCACAAAACACAT
*
83881677 ACCATAAACCACAAAACACA-
1 ACCCTAAACCACAAAACACAT
83881697 ATCCCTAAACC
1 A-CCCTAAACC
83881708 CTAAAACCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.50, C:0.37, G:0.00, T:0.13
Consensus pattern (21 bp):
ACCCTAAACCACAAAACACAT
Found at i:83881713 original size:21 final size:21
Alignment explanation
Indices: 83881656--83881714 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
83881646 CAAGTCCCAA
* *
83881656 ACCCTAAACCATAAATCACAT
1 ACCCTAAACCCTAAAACACAT
*
83881677 ACCATAAACCAC-AAAACACA-
1 ACCCTAAACC-CTAAAACACAT
83881697 ATCCCTAAACCCTAAAAC
1 A-CCCTAAACCCTAAAAC
83881715 CCTAAATTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
20 2 0.06
21 29 0.94
ACGTcount: A:0.51, C:0.36, G:0.00, T:0.14
Consensus pattern (21 bp):
ACCCTAAACCCTAAAACACAT
Found at i:83881929 original size:14 final size:14
Alignment explanation
Indices: 83881910--83881946 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
83881900 TAAGACCCTG
*
83881910 ACCCTATACGATAA
1 ACCCTAAACGATAA
*
83881924 ACCCTAAACTATAA
1 ACCCTAAACGATAA
83881938 ACCCTAAAC
1 ACCCTAAAC
83881947 CCCAAATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.32, G:0.03, T:0.19
Consensus pattern (14 bp):
ACCCTAAACGATAA
Found at i:83881946 original size:21 final size:21
Alignment explanation
Indices: 83881920--83882011 Score: 75
Period size: 21 Copynumber: 4.5 Consensus size: 21
83881910 ACCCTATACG
83881920 ATAAACCCTAAA-CTATAAACC
1 ATAAACCCTAAATC-ATAAACC
* * *
83881941 CTAAACCCCAAATCATAGACC
1 ATAAACCCTAAATCATAAACC
*
83881962 ATAAACCCT-AAT--TAACCC
1 ATAAACCCTAAATCATAAACC
***
83881980 ATAAAGTATAAATCATAAACC
1 ATAAACCCTAAATCATAAACC
*
83882001 ATAACCCCTAA
1 ATAAACCCTAA
83882012 CCCCAACATC
Statistics
Matches: 52, Mismatches: 15, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
18 10 0.19
19 3 0.06
20 3 0.06
21 35 0.67
22 1 0.02
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.20
Consensus pattern (21 bp):
ATAAACCCTAAATCATAAACC
Found at i:83882349 original size:28 final size:27
Alignment explanation
Indices: 83882318--83882381 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 27
83882308 CTTTTAAATT
83882318 ATAAACCTCAAACCCTAAATCATAAAAC
1 ATAAACCTC-AACCCTAAATCATAAAAC
* *
83882346 ATAAATCATCAACCCTAAATCATAACAC
1 ATAAA-CCTCAACCCTAAATCATAAAAC
*
83882374 TTAAACCT
1 ATAAACCT
83882382 ATAAAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 2 0.06
28 26 0.84
29 3 0.10
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (27 bp):
ATAAACCTCAACCCTAAATCATAAAAC
Found at i:83883335 original size:158 final size:155
Alignment explanation
Indices: 83883048--83883506 Score: 450
Period size: 155 Copynumber: 2.9 Consensus size: 155
83883038 AAGATTGATA
* * * * *
83883048 TATTGCGGCGTTTTAAGTAAAGCACCGCTAATGCCATTGAAGCTAATTTAAAACGACGTCG-TTT
1 TATTGCGGCGTTTTTAGGAAAGCGCCGCTAATGCCATTGAAGCTCATATAAAACGACGTCGTTTT
* * * * * * *
83883112 GCCTTAATC-TATTAGCGGCGTTTACAAAAAAACGCCGCTAATTATGCGACCTATAGCGGCGTTT
66 G-CTTAA-CATTTTAGCGGCTTTTTC-CAAAAACGCCACTAATAAGGCGACCTATAGCGGCG-TT
* * *
83883176 TTTTTACAGAAATGCCTCTAAAGTGCGAGC
127 TTTTTA-AAAAACGCCACTAAAGTGCGAGC
*
83883206 TATTGCGGCGTTTTTAGGAAAGCGCCGCTAATGTCATTGAAGCTCATATAAAACGACGTCGTTTT
1 TATTGCGGCGTTTTTAGGAAAGCGCCGCTAATGCCATTGAAGCTCATATAAAACGACGTCGTTTT
* *
83883271 GTTTAACATTTTAGCGGCATTTTTCCAAAAACGCCAC-AA-AAGGCGGACCTTTAGCGGCGTTTT
66 GCTTAACATTTTAGCGGC-TTTTTCCAAAAACGCCACTAATAAGGC-GACCTATAGCGGCGTTTT
** *
83883334 TTTAAAAAACGCCACTAAAGTTTGATC
129 TTTAAAAAACGCCACTAAAGTGCGAGC
* * * * * * * *
83883361 TGTTACGGCGTTTTTGGGAAAACGCCGCTACTGCCAATGAAGCTCATGTAAAACGACGTCGTCTT
1 TATTGCGGCGTTTTTAGGAAAGCGCCGCTAATGCCATTGAAGCTCATATAAAACGACGTCGTTTT
* * * *
83883426 GCTTAA-ACTTTTAGCGGCGCTTTTT-CAAAAACGCCGCT-A-AAGCTCGATCTATTGCGGCGTT
66 GCTTAACA-TTTTAGC-G-GCTTTTTCCAAAAACGCCACTAATAAG-GCGACCTATAGCGGCGTT
*
83883487 TTTTT-AAAAACGCCGCTAAA
127 TTTTTAAAAAACGCCACTAAA
83883507 ACTCTATCTA
Statistics
Matches: 255, Mismatches: 37, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
154 15 0.06
155 118 0.46
156 18 0.07
157 18 0.07
158 78 0.31
159 8 0.03
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (155 bp):
TATTGCGGCGTTTTTAGGAAAGCGCCGCTAATGCCATTGAAGCTCATATAAAACGACGTCGTTTT
GCTTAACATTTTAGCGGCTTTTTCCAAAAACGCCACTAATAAGGCGACCTATAGCGGCGTTTTTT
TAAAAAACGCCACTAAAGTGCGAGC
Found at i:83883484 original size:40 final size:40
Alignment explanation
Indices: 83883439--83883518 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
83883429 TAAACTTTTA
*
83883439 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCTCGATCTATT
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAACTCGATCTATT
* * *
83883479 GCGGCGTTTTTTTAAAAACGCCGCTAAAACTCTATCTATT
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAACTCGATCTATT
83883519 TGATTTTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (40 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAACTCGATCTATT
Found at i:83883560 original size:12 final size:12
Alignment explanation
Indices: 83883543--83883569 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
83883533 ATTTTCTTTT
83883543 AAAACGCCGCTA
1 AAAACGCCGCTA
83883555 AAAACGCCGCTA
1 AAAACGCCGCTA
83883567 AAA
1 AAA
83883570 GTCTGTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:83887342 original size:17 final size:17
Alignment explanation
Indices: 83887320--83887353 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
83887310 AGCCGTAATG
83887320 TATCTTCTGTATTTAAA
1 TATCTTCTGTATTTAAA
83887337 TATCTTCTGTATTTAAA
1 TATCTTCTGTATTTAAA
83887354 GCCCCAGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (17 bp):
TATCTTCTGTATTTAAA
Found at i:83887744 original size:21 final size:21
Alignment explanation
Indices: 83887698--83887768 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
83887688 AAATAGTAAT
* *
83887698 AAAATAATAGT-AAAATGATAAC
1 AAAATAATA-TCAAAA-AATAAA
*
83887720 AAAATAATATCAAAAAATAAG
1 AAAATAATATCAAAAAATAAA
* * * *
83887741 AAAACAACAGCAAAACATAAA
1 AAAATAATATCAAAAAATAAA
83887762 AAAATAA
1 AAAATAA
83887769 CAATAAGTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
21 27 0.68
22 13 0.32
ACGTcount: A:0.70, C:0.08, G:0.06, T:0.15
Consensus pattern (21 bp):
AAAATAATATCAAAAAATAAA
Found at i:83887770 original size:21 final size:21
Alignment explanation
Indices: 83887715--83887770 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
83887705 TAGTAAAATG
* * *
83887715 ATAACAAAATAATATCAAAAA
1 ATAAAAAAATAACAGCAAAAA
* * *
83887736 ATAAGAAAACAACAGCAAAAC
1 ATAAAAAAATAACAGCAAAAA
83887757 ATAAAAAAATAACA
1 ATAAAAAAATAACA
83887771 ATAAGTTGTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.71, C:0.12, G:0.04, T:0.12
Consensus pattern (21 bp):
ATAAAAAAATAACAGCAAAAA
Found at i:83902794 original size:17 final size:17
Alignment explanation
Indices: 83902737--83902799 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 17
83902727 TTTTAATAAG
*
83902737 ATTTAATATTAAATTTA
1 ATTTAATATTAAATTAA
* *
83902754 ATCTAATATT-TATTAA
1 ATTTAATATTAAATTAA
* *
83902770 GA-TAAATATTAGATTAA
1 -ATTTAATATTAAATTAA
83902787 ATTTAATATTAAA
1 ATTTAATATTAAA
83902800 GTGATTAAGT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
16 11 0.31
17 24 0.69
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (17 bp):
ATTTAATATTAAATTAA
Found at i:83907092 original size:15 final size:15
Alignment explanation
Indices: 83907072--83907103 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
83907062 CATTTCACTA
*
83907072 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
83907087 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
83907102 TT
1 TT
83907104 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:83912047 original size:4 final size:4
Alignment explanation
Indices: 83912038--83912102 Score: 53
Period size: 4 Copynumber: 16.0 Consensus size: 4
83912028 CATACAAATT
* * *
83912038 AGAA AGAA AGAA A-AA GAAAA AGAA AGAA AGGA AGAA GAGAA A-AA GAAAA
1 AGAA AGAA AGAA AGAA -AGAA AGAA AGAA AGAA AGAA -AGAA AGAA -AGAA
*
83912087 AGAA AGAA AGGA AGAA
1 AGAA AGAA AGAA AGAA
83912103 GGAAGAAATG
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
3 4 0.08
4 38 0.76
5 8 0.16
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:83912055 original size:6 final size:6
Alignment explanation
Indices: 83912044--83912091 Score: 51
Period size: 6 Copynumber: 7.2 Consensus size: 6
83912034 AATTAGAAAG
83912044 AAAGAA AAAGAA AAAGAAA GAAAGGAA GAAGAGAA AAAGAA AAAGAA A
1 AAAGAA AAAGAA AAAG-AA -AAA-GAA -AA-AGAA AAAGAA AAAGAA A
83912092 GAAAGGAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 21 0.55
7 4 0.11
8 11 0.29
9 2 0.05
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:83912083 original size:29 final size:29
Alignment explanation
Indices: 83912041--83912103 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
83912031 ACAAATTAGA
83912041 AAGAA-AGAAAAAGAAAAAGAAAGAAAGG
1 AAGAAGAGAAAAAGAAAAAGAAAGAAAGG
83912069 AAGAAGAGAAAAAGAAAAAGAAAGAAAGG
1 AAGAAGAGAAAAAGAAAAAGAAAGAAAGG
83912098 AAGAAG
1 AAGAAG
83912104 GAAGAAATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 5 0.15
29 29 0.85
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (29 bp):
AAGAAGAGAAAAAGAAAAAGAAAGAAAGG
Found at i:83912088 original size:21 final size:23
Alignment explanation
Indices: 83912039--83912101 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 23
83912029 ATACAAATTA
*
83912039 GAAAGAAAGAAAAAGAAAAAGAAA
1 GAAAGAAAG-AAGAGAAAAAGAAA
*
83912063 GAAAGGAAGAAGAGAAAAAGAAAAA
1 GAAAGAAAGAAGAGAAAAAG--AAA
83912088 GAAAGAAAGGAAGA
1 GAAAGAAA-GAAGA
83912102 AGGAAGAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 10 0.30
24 8 0.24
25 10 0.30
26 5 0.15
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (23 bp):
GAAAGAAAGAAGAGAAAAAGAAA
Found at i:83912478 original size:20 final size:20
Alignment explanation
Indices: 83912442--83912479 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
83912432 GTGCAATTTG
*
83912442 TATGAAAATATAGAATTAAA
1 TATGAAAATATAAAATTAAA
83912462 TATGAAGAATA-AAAATTA
1 TATGAA-AATATAAAATTA
83912480 GTCTCGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (20 bp):
TATGAAAATATAAAATTAAA
Found at i:83913793 original size:3 final size:3
Alignment explanation
Indices: 83913785--83913812 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
83913775 GAATAATGAC
83913785 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
83913813 TCCAAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:83916087 original size:45 final size:44
Alignment explanation
Indices: 83916013--83916188 Score: 138
Period size: 45 Copynumber: 4.0 Consensus size: 44
83916003 GATTTGTGAC
* * * *
83916013 TTATAGCTTTAATCTGCCCCACTGCAACTTCAGGGAAATGAGGT
1 TTATAGCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGGT
* * *
83916057 TCGT-TATCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGGT
1 T--TATAGCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGGT
* * * * *
83916102 TTATAGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGAT
1 TTATAGCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGGT
* ** * * * * *
83916146 TTGCTTTCTTCAGTCTGCTCTACTGCAAGTTCAGGGAGATAAG
1 TT-ATAGCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAG
83916189 ACTTGTGACA
Statistics
Matches: 107, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
43 1 0.01
44 38 0.36
45 67 0.63
46 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (44 bp):
TTATAGCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGGT
Found at i:83916131 original size:44 final size:44
Alignment explanation
Indices: 83916016--83916413 Score: 289
Period size: 44 Copynumber: 9.0 Consensus size: 44
83916006 TTGTGACTTA
* * * * * *
83916016 TAGCTTTAATCTGCCCCACTGCAACTTCAGGGAAATGAGGTTCG
1 TAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTG
* * * * * * *
83916060 TTATCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGGTTTA
1 -TAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTG
* *
83916105 TAGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTG
1 TAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTG
** * * * *
83916149 CTTTCTTCAGTCTGCTCTACTGCAAGTTCAGGGAGATAAGACTTG
1 -TAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTG
* * * *
83916194 T-GACATTAATCTGCTCTACTGTAATTTCAGGGAGATAAGATTCG
1 TAG-CTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTG
** * *
83916238 TAGCTTTAATCTGCT-TCACTTTAACTTTAGGGAGATAAGATTCG
1 TAGCTTTAATCTGCTCT-ACTGCAACTTCAGGGAGATAAGATTTG
* * * * * *
83916282 TCA-TTTTCAATCTGCTCTACTACAACTTCAGAGAGTTGAGATTCG
1 T-AGCTTT-AATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTG
* * * ** * * *
83916327 TAACTTCAACCTGCTCTACTATAACTTTAGGGAGATAAGGTTTA
1 TAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTG
* * * * *
83916371 TGGCTTTAATCTACTCCACTGTAACTTTAGGGAGATAAGATTT
1 TAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTT
83916414 TCCGTGATAA
Statistics
Matches: 283, Mismatches: 62, Indels: 17
0.78 0.17 0.05
Matches are distributed among these distances:
43 1 0.00
44 176 0.62
45 105 0.37
46 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (44 bp):
TAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTG
Found at i:83916179 original size:89 final size:88
Alignment explanation
Indices: 83916013--83916604 Score: 370
Period size: 89 Copynumber: 6.5 Consensus size: 88
83916003 GATTTGTGAC
* * * * * * *
83916013 TTATAGCTTTAATCTGCCCCACTGCAACTTCAGGGAAATGAGGTTCGTTATCTTCAATCTACTCC
1 TTATAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTCG-TATCTTCAATCTGCTCT
*
83916078 ACTACAACTTCAGGGAGATAAGGT
65 ACTACAACTTCAGGGAGATAAGAT
* * * * *
83916102 TTATAGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTTTCTTCAGTCTGCTCT
1 TTATAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTCG-TATCTTCAATCTGCTCT
* * *
83916167 ACTGCAAGTTCAGGGAGATAAGAC
65 ACTACAACTTCAGGGAGATAAGAT
* * * * * *
83916191 TTGT-GACATTAATCTGCTCTACTGTAATTTCAGGGAGATAAGATTCGTAGCTTTAATCTGCT-T
1 TTATAG-CTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTCGTATCTTCAATCTGCTCT
** *
83916254 CACTTTAACTTTAGGGAGATAAGAT
65 -ACTACAACTTCAGGGAGATAAGAT
** * * * * * * *
83916279 TCGTCA-TTTTCAATCTGCTCTACTACAACTTCAGAGAGTTGAGATTCGTAACTTCAACCTGCTC
1 TTAT-AGCTTT-AATCTGCTCTACTGCAACTTCAGGGAGATAAGATTCGTATCTTCAATCTGCTC
* * *
83916343 TACTATAACTTTAGGGAGATAAGGT
64 TACTACAACTTCAGGGAGATAAGAT
* * * * * * *
83916368 TTATGGCTTTAATCTACTCCACTGTAACTTTAGGGAGATAAGATTTTCCGTGATAATTTCAGT-T
1 TTATAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGA--TT-CGT-AT--CTTCAATCT
* * *
83916432 -CGTCTTATTGCAACTTTAGGG-GTATAAGATT
60 GC-TC-TACTACAACTTCAGGGAG-ATAAGA-T
* * * * * *
83916463 TGTAACTTGTAGCTTAAATCTGTTCCACTACAACTTCAGGGAAATAAGATCCGCTATCTTCAA-C
1 T-T-A----TAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTCG-TATCTTCAATC
* * * *
83916527 TTGCTCCACTGCAGCTTCAGGGAGATAAGGT
59 -TGCTCTACTACAACTTCAGGGAGATAAGAT
* * * *
83916558 TAATGGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTCG
1 TTATAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTCG
83916605 CCGTGGTAGA
Statistics
Matches: 384, Mismatches: 91, Indels: 56
0.72 0.17 0.11
Matches are distributed among these distances:
87 1 0.00
88 61 0.16
89 217 0.57
90 3 0.01
91 3 0.01
92 2 0.01
93 5 0.01
94 22 0.06
95 4 0.01
96 22 0.06
97 5 0.01
98 5 0.01
99 2 0.01
101 32 0.08
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (88 bp):
TTATAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTCGTATCTTCAATCTGCTCTA
CTACAACTTCAGGGAGATAAGAT
Found at i:83916242 original size:133 final size:134
Alignment explanation
Indices: 83916023--83916413 Score: 391
Period size: 133 Copynumber: 2.9 Consensus size: 134
83916013 TTATAGCTTT
* * * * * * * * * * * *
83916023 AATCTGCCCCACTGCAACTTCAGGGAAATGAGGTTCGTTATCTTCAATCTACTCCACTACAAC-T
1 AATCTGCTCTACTACAACTTCAGAGAGATAAGATTCG-TAACTTCAACCTGCTCTACTATAACTT
* * * *
83916087 TCAGGGAGATAAGGTTTATAGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTG-CT
65 TCAGGGAGATAAGGTTTATAGCTTTAATCTACTCTACTGTAACTTTAGGGAGATAAGATTTGTCA
83916151 TTCTTC
130 TT-TTC
* * * * * * *
83916157 AGTCTGCTCTACTGCAAGTTCAGGGAGATAAGACTT-GTGACATT-AATCTGCTCTACTGTAA-T
1 AATCTGCTCTACTACAACTTCAGAGAGATAAGA-TTCGTAAC-TTCAACCTGCTCTACTATAACT
* ** * * *
83916219 TTCAGGGAGATAAGATTCGTAGCTTTAATCTGCT-TCACTTTAACTTTAGGGAGATAAGATTCGT
64 TTCAGGGAGATAAGGTTTATAGCTTTAATCTACTCT-ACTGTAACTTTAGGGAGATAAGATTTGT
83916283 CATTTTC
128 CATTTTC
* *
83916290 AATCTGCTCTACTACAACTTCAGAGAGTTGAGATTCGTAACTTCAACCTGCTCTACTATAACTTT
1 AATCTGCTCTACTACAACTTCAGAGAGATAAGATTCGTAACTTCAACCTGCTCTACTATAACTTT
* *
83916355 -AGGGAGATAAGGTTTATGGCTTTAATCTACTCCACTGTAACTTTAGGGAGATAAGATTT
66 CAGGGAGATAAGGTTTATAGCTTTAATCTACTCTACTGTAACTTTAGGGAGATAAGATTT
83916414 TCCGTGATAA
Statistics
Matches: 208, Mismatches: 40, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
132 5 0.02
133 166 0.80
134 35 0.17
135 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (134 bp):
AATCTGCTCTACTACAACTTCAGAGAGATAAGATTCGTAACTTCAACCTGCTCTACTATAACTTT
CAGGGAGATAAGGTTTATAGCTTTAATCTACTCTACTGTAACTTTAGGGAGATAAGATTTGTCAT
TTTC
Found at i:83926324 original size:46 final size:46
Alignment explanation
Indices: 83926198--83926360 Score: 129
Period size: 46 Copynumber: 3.5 Consensus size: 46
83926188 ACATCGACGC
* * ** *
83926198 CATGTCCCAGACATGGTCTTACACT-GACACATCTTGTA-GTCGATG-
1 CATGTCCCAGACAT-GTCTTACACTAGTCACGTC-TCAAGGCCGATGA
* * * * *
83926243 CATGTCCCGGACATGTCTTATACTAGTTTACGTCTCGAGGCCTAT-A
1 CATGTCCCAGACATGTCTTACACTAG-TCACGTCTCAAGGCCGATGA
* *
83926289 CATGTCCCAGACATGTCTTACACTAG-CACCTGTCTCAATGCCGATGC
1 CATGTCCCAGACATGTCTTACACTAGTCA-C-GTCTCAAGGCCGATGA
83926336 CATGTCCCAGACATGGTCTTACACT
1 CATGTCCCAGACAT-GTCTTACACT
83926361 GGCTCTCATA
Statistics
Matches: 94, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
44 10 0.11
45 17 0.18
46 43 0.46
47 14 0.15
48 10 0.11
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGTCACGTCTCAAGGCCGATGA
Found at i:83929138 original size:14 final size:14
Alignment explanation
Indices: 83929119--83929167 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
83929109 ACAAATTTCT
83929119 TTACATAAAATGGA
1 TTACATAAAATGGA
* **
83929133 TTACAT-ATATAGCT
1 TTACATAAAAT-GGA
83929147 TTACATAAAATGGA
1 TTACATAAAATGGA
83929161 TTACATA
1 TTACATA
83929168 TATAGCTTTG
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
13 3 0.11
14 21 0.78
15 3 0.11
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (14 bp):
TTACATAAAATGGA
Found at i:83929157 original size:28 final size:28
Alignment explanation
Indices: 83929117--83929176 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
83929107 AAACAAATTT
83929117 CTTTACATAAAATGGATTACATATATAG
1 CTTTACATAAAATGGATTACATATATAG
83929145 CTTTACATAAAATGGATTACATATATAG
1 CTTTACATAAAATGGATTACATATATAG
83929173 CTTT
1 CTTT
83929177 GCCCTATAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (28 bp):
CTTTACATAAAATGGATTACATATATAG
Found at i:83932135 original size:12 final size:12
Alignment explanation
Indices: 83932118--83932161 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
83932108 ACTAACATAG
83932118 AATAATGACAAT
1 AATAATGACAAT
*
83932130 AATAATAACAAT
1 AATAATGACAAT
*
83932142 AATAAT-AGTAAT
1 AATAATGA-CAAT
83932154 AATAATGA
1 AATAATGA
83932162 AATCTAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 1 0.04
12 26 0.93
13 1 0.04
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (12 bp):
AATAATGACAAT
Found at i:83953953 original size:22 final size:23
Alignment explanation
Indices: 83953904--83953963 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 23
83953894 ATAATTATTT
*
83953904 TTTATAA-ATATAA-ATTTAATG
1 TTTATAATATATAATATTTAATA
*
83953925 TTT-TAATA-ATAATATTTACTA
1 TTTATAATATATAATATTTAATA
*
83953946 TTTATAATATAAAATATT
1 TTTATAATATATAATATT
83953964 AAACAATGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
20 7 0.22
21 13 0.41
22 5 0.16
23 7 0.22
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TTTATAATATATAATATTTAATA
Found at i:83958255 original size:34 final size:35
Alignment explanation
Indices: 83958182--83958255 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
83958172 AAGCCCAGCT
* *
83958182 CTAGTTGGATAAACCAACGGTAATTGTGCCAAGCG
1 CTAGTCGGATAAACCAACGGTAATTGTGCCAAGCA
* * * *
83958217 CTAGTCGGATTAACCGACGGTTA-TGTGCCTAGCA
1 CTAGTCGGATAAACCAACGGTAATTGTGCCAAGCA
83958251 CTAGT
1 CTAGT
83958256 TAGACAAGCT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 14 0.42
35 19 0.58
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (35 bp):
CTAGTCGGATAAACCAACGGTAATTGTGCCAAGCA
Found at i:83977641 original size:47 final size:47
Alignment explanation
Indices: 83977567--83977666 Score: 182
Period size: 47 Copynumber: 2.1 Consensus size: 47
83977557 TCTTGCACGT
83977567 TATCTTATAATGATTCTTTGCACAGTTGACGTCCATATAGATGAGCA
1 TATCTTATAATGATTCTTTGCACAGTTGACGTCCATATAGATGAGCA
* *
83977614 TATCTTATAATGATTCTTTGCATAGTTGATGTCCATATAGATGAGCA
1 TATCTTATAATGATTCTTTGCACAGTTGACGTCCATATAGATGAGCA
83977661 TATCTT
1 TATCTT
83977667 CTTAAGGAGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (47 bp):
TATCTTATAATGATTCTTTGCACAGTTGACGTCCATATAGATGAGCA
Found at i:83981703 original size:25 final size:25
Alignment explanation
Indices: 83981661--83981720 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
83981651 CCATATGACA
*
83981661 GGAAGCTCATGTGAGCTATATAACG
1 GGAAGCTCATCTGAGCTATATAACG
* * *
83981686 GGAAGCTTATCTGGGCTATATAATG
1 GGAAGCTCATCTGAGCTATATAACG
83981711 GGAAGCTCAT
1 GGAAGCTCAT
83981721 AAGAGTCATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (25 bp):
GGAAGCTCATCTGAGCTATATAACG
Found at i:83982383 original size:21 final size:21
Alignment explanation
Indices: 83982359--83982400 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
83982349 TAAATTTAGC
*
83982359 TCAATTTAATACAATTCACAT
1 TCAATTCAATACAATTCACAT
*
83982380 TCAATTCAATTCAATTCACAT
1 TCAATTCAATACAATTCACAT
83982401 CCTAGGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.38
Consensus pattern (21 bp):
TCAATTCAATACAATTCACAT
Found at i:83982388 original size:5 final size:5
Alignment explanation
Indices: 83982359--83982397 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
83982349 TAAATTTAGC
* *
83982359 TCAAT TTAAT ACAAT TCACAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
83982398 CATCCTAGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (5 bp):
TCAAT
Found at i:83990610 original size:19 final size:18
Alignment explanation
Indices: 83990578--83990623 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
83990568 TATGGCCTTA
* *
83990578 ATAAATAATTTTTAAAAAT
1 ATAAAAAATATTT-AAAAT
83990597 ATAAAAAATATTTAAAAT
1 ATAAAAAATATTTAAAAT
*
83990615 TTAAAAAAT
1 ATAAAAAAT
83990624 TATAAAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAAAAAATATTTAAAAT
Found at i:83991096 original size:137 final size:137
Alignment explanation
Indices: 83990827--83991095 Score: 409
Period size: 137 Copynumber: 2.0 Consensus size: 137
83990817 TAATCGCAAG
* *
83990827 TAAATGCATCTCCCATCCAAAGGGACCCTTAGTCAGTATTTTCATCAAAAGAACAACAATTTAAC
1 TAAATGCATCTCCCATCCAAAAGGACCCCTAGTCAGTATTTTCATCAAAAGAACAACAATTTAAC
* * *
83990892 TCTTTTTGAAAGATTAATGGTTAAATTAGACTTTTTTTTAAAAGTTGATAGTCAAATTTAGTTAA
66 TCTTTTTAAAAGATTAATGATTAAATTAGACTTTTTTTTAAAAGTTGATAGTCAAATTTAATTAA
83990957 AAATAAA
131 AAATAAA
* * * *
83990964 TAAATGCATCTGCCATCCAAAAGGACCCCTAGTTAGTATTTTCGTCAAAAGAACAATAATTTAAC
1 TAAATGCATCTCCCATCCAAAAGGACCCCTAGTCAGTATTTTCATCAAAAGAACAACAATTTAAC
*
83991029 TCTTTTTAAAAGATTAATGATTAAATTAGAC-TTTTTTTAAAGGTT-A-ACGATCAAATTTAATT
66 TCTTTTTAAAAGATTAATGATTAAATTAGACTTTTTTTTAAAAGTTGATA-G-TCAAATTTAATT
83991091 AAAAA
129 AAAAA
83991096 AATAACAATC
Statistics
Matches: 120, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
134 1 0.01
135 2 0.02
136 29 0.24
137 88 0.73
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (137 bp):
TAAATGCATCTCCCATCCAAAAGGACCCCTAGTCAGTATTTTCATCAAAAGAACAACAATTTAAC
TCTTTTTAAAAGATTAATGATTAAATTAGACTTTTTTTTAAAAGTTGATAGTCAAATTTAATTAA
AAATAAA
Found at i:83995324 original size:18 final size:18
Alignment explanation
Indices: 83995280--83995327 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
83995270 TAGTACAACT
*
83995280 AGAGCAGGAGGAAGGGTA
1 AGAGCAGGAGGAAGGATA
** *
83995298 AGAATAGGAGGCAGGATA
1 AGAGCAGGAGGAAGGATA
83995316 AGAGCAGGAGGA
1 AGAGCAGGAGGA
83995328 GTGATGGCTC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.46, T:0.06
Consensus pattern (18 bp):
AGAGCAGGAGGAAGGATA
Found at i:83997328 original size:16 final size:16
Alignment explanation
Indices: 83997293--83997339 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
83997283 TCTTTAAGTG
* * *
83997293 AAGAAAGATTACGCCC
1 AAGAAAGAGTACACCT
*
83997309 AAGAAAGAGTGCACCT
1 AAGAAAGAGTACACCT
83997325 AAGAAAGAGTACACC
1 AAGAAAGAGTACACC
83997340 CCAAAGTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.11
Consensus pattern (16 bp):
AAGAAAGAGTACACCT
Found at i:83998728 original size:25 final size:25
Alignment explanation
Indices: 83998672--83998734 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
83998662 AAACCAAACC
* *
83998672 AAGCCCTTGTGGCGAGTTATCTATA
1 AAGCCTTTGTGGCGAATTATCTATA
* *
83998697 AAACCTTTATGGCGAATTATCTGA-A
1 AAGCCTTTGTGGCGAATTATCT-ATA
83998722 AAGCCTTTGTGGC
1 AAGCCTTTGTGGC
83998735 ATATTGTTTG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
25 30 0.97
26 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (25 bp):
AAGCCTTTGTGGCGAATTATCTATA
Found at i:84009909 original size:13 final size:13
Alignment explanation
Indices: 84009893--84009918 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84009883 AAATTAAATA
84009893 AAGTTAAATAGAT
1 AAGTTAAATAGAT
84009906 AAGTTAAATAGAT
1 AAGTTAAATAGAT
84009919 GCAAAGAATG
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:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (13 bp):
AAGTTAAATAGAT
Found at i:84020304 original size:23 final size:21
Alignment explanation
Indices: 84020260--84020321 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 21
84020250 TTTGATATTT
* *
84020260 TTTTTTGAATTATATATATTTAA
1 TTTTTT-AATTTTTTAT-TTTAA
84020283 TTTTTCTATATTTTTTATTTTAA
1 TTTTT-TA-ATTTTTTATTTTAA
84020306 TTTTTTAATTTTTTAT
1 TTTTTTAATTTTTTAT
84020322 AATTTTAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 9 0.26
22 2 0.06
23 16 0.46
24 8 0.23
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTTTAATTTTTTATTTTAA
Found at i:84020326 original size:24 final size:24
Alignment explanation
Indices: 84020269--84020330 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 24
84020259 TTTTTTTGAA
84020269 TTATATATATTTAATTTTTCTATATT
1 TTATA-AT-TTTAATTTTTCTATATT
* *
84020295 TT-TTATTTTAATTTTT-TAATTTT
1 TTATAATTTTAATTTTTCT-ATATT
84020318 TTATAATTTTAAT
1 TTATAATTTTAAT
84020331 CCAAAAATCG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 1 0.03
23 16 0.52
24 11 0.35
25 1 0.03
26 2 0.06
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (24 bp):
TTATAATTTTAATTTTTCTATATT
Found at i:84021732 original size:21 final size:21
Alignment explanation
Indices: 84021706--84021745 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
84021696 GCTCTGTCAT
84021706 GATACTATAGTGAAATGACAC
1 GATACTATAGTGAAATGACAC
84021727 GATACTATAGTGAAATGAC
1 GATACTATAGTGAAATGAC
84021746 TTTGTGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.25
Consensus pattern (21 bp):
GATACTATAGTGAAATGACAC
Found at i:84022177 original size:16 final size:18
Alignment explanation
Indices: 84022150--84022182 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
84022140 TAGAATCGAG
84022150 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
84022167 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
84022183 TGATGTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:84023825 original size:37 final size:37
Alignment explanation
Indices: 84023760--84023874 Score: 185
Period size: 37 Copynumber: 3.1 Consensus size: 37
84023750 ACCTTTAGCT
* * *
84023760 CAGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
84023797 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
84023834 CAGACATAATCTCCACACGTAGTCATCGGGTCTTACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
84023871 CAGA
1 CAGA
84023875 ATATATTTCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (37 bp):
CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:84024138 original size:100 final size:96
Alignment explanation
Indices: 84024020--84024353 Score: 494
Period size: 100 Copynumber: 3.4 Consensus size: 96
84024010 GCACATCGCC
* * *
84024020 TACATATTTCACACTAGCCCTTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACA
*
84024085 TT-GACCATTCGGCTTTACCACATATGCATATCTCA
62 TTAG-CCATTCGGCTTTACCACATATACATATCTCA
84024120 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT-TCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
84024184 CCATTCGGCTTTACCACATATACATATCTCATATA
66 CCATTCGGCTTTACCACATATACATATCTC----A
* *
84024219 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTA
84024283 GCCATTCGGCTTTACCACATATACATATCTCA
65 GCCATTCGGCTTTACCACATATACATATCTCA
*
84024315 TACATATTTCACATTAGCCATTCGACTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
84024354 TGCATGTTTA
Statistics
Matches: 217, Mismatches: 9, Indels: 20
0.88 0.04 0.08
Matches are distributed among these distances:
95 44 0.20
96 36 0.17
97 1 0.00
98 1 0.00
99 43 0.20
100 92 0.42
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (96 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATACATATCTCA
Found at i:84024146 original size:48 final size:48
Alignment explanation
Indices: 84024020--84024353 Score: 494
Period size: 48 Copynumber: 6.8 Consensus size: 48
84024010 GCACATCGCC
* *
84024020 TACATATTTCACACTAGCCCTTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* *
84024072 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
84024120 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT-TCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
84024167 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* *
84024219 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
84024267 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
84024315 TACATATTTCACATTAGCCATTCGACTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
84024354 TGCATGTTTA
Statistics
Matches: 262, Mismatches: 11, Indels: 22
0.89 0.04 0.07
Matches are distributed among these distances:
47 47 0.18
48 126 0.48
49 2 0.01
51 2 0.01
52 85 0.32
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:84024191 original size:147 final size:148
Alignment explanation
Indices: 84024020--84024353 Score: 634
Period size: 147 Copynumber: 2.3 Consensus size: 148
84024010 GCACATCGCC
* *
84024020 TACATATTTCACACTAGCCCTTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
84024085 TTGACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
66 TTGACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
84024150 CCACATATACAT-TCTCA
131 CCACATATACATATCTCA
84024167 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
84024232 TTGACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
66 TTGACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
84024297 CCACATATACATATCTCA
131 CCACATATACATATCTCA
*
84024315 TACATATTTCACATTAGCCATTCGACTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
84024354 TGCATGTTTA
Statistics
Matches: 183, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
147 140 0.77
148 43 0.23
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (148 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
TTGACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
CCACATATACATATCTCA
Found at i:84024402 original size:47 final size:47
Alignment explanation
Indices: 84024323--84024516 Score: 246
Period size: 47 Copynumber: 4.1 Consensus size: 47
84024313 CATACATATT
* * * * *
84024323 TCACATTAGCCATTC-GACTTTACCACATATATGCATGTTTATATTCA
1 TCACATTGGCCATTCAG-CCTTATCACATATATGCATGTTCACATTCA
* * *
84024370 CCACATTGGCCATTCAGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCAGCCTTATCACATATATGCATGTTCACATTCA
*
84024417 TCACATTGGTCATTCAGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCAGCCTTATCACATATATGCATGTTCACATTCA
* * * **
84024464 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCAGCCTTATCACATATATGCATGTTCACATTCA
84024511 TCACAT
1 TCACAT
84024517 AAAATCCTAA
Statistics
Matches: 128, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
47 127 0.99
48 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCAGCCTTATCACATATATGCATGTTCACATTCA
Found at i:84024466 original size:25 final size:25
Alignment explanation
Indices: 84024391--84024469 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
84024381 ATTCAGCCTT
* *
84024391 ATCACACATATGCATGCTCACATTC
1 ATCACATATATGCATGTTCACATTC
* *
84024416 ATCACAT-T-GGTCA--TTCAGCCTT-
1 ATCACATATATG-CATGTTCA-CATTC
84024438 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATGTTCACATTC
84024463 ATCACAT
1 ATCACAT
84024470 TGGCCATTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 10 0.24
23 7 0.17
24 7 0.17
25 17 0.41
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (25 bp):
ATCACATATATGCATGTTCACATTC
Found at i:84029744 original size:18 final size:18
Alignment explanation
Indices: 84029700--84029745 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
84029690 AATCATAAAT
84029700 AATTATTAAAAATTCTCAA
1 AATTA-TAAAAATTCTCAA
* **
84029719 AATCATAAAAATTCTTTA
1 AATTATAAAAATTCTCAA
84029737 AATTATAAA
1 AATTATAAA
84029746 GAAACTAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (18 bp):
AATTATAAAAATTCTCAA
Found at i:84029846 original size:18 final size:19
Alignment explanation
Indices: 84029811--84029847 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
84029801 ATAAAAATAT
*
84029811 TTTAAAATTGTAAAAAAAC
1 TTTAAAATGGTAAAAAAAC
84029830 TTTAAAATGGTAAAAAAA
1 TTTAAAATGGTAAAAAAA
84029848 TATAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (19 bp):
TTTAAAATGGTAAAAAAAC
Found at i:84048163 original size:44 final size:44
Alignment explanation
Indices: 84048067--84048275 Score: 193
Period size: 44 Copynumber: 4.8 Consensus size: 44
84048057 CCGTAGCGAA
* * * * *
84048067 TCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAACTATAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAG
* ** *
84048111 TCTAATCTCCCTAAAGTTTTAGTGGAGCAGATTGAAGTTACAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAG
* * * *
84048155 TCTTATCTCCTTGAAGTTGCAGTGGACCAAATTGAAGCTACAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAG
* * * * * *
84048199 TCTTATCTTCTTGAAGTTGCAGTGGAGTAGATTGAAGCCACAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAG
* ** * * *
84048243 TTTTATCTCTTTGAAGTTGTAGTAGAGCAGATT
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATT
84048276 AAACTATAAA
Statistics
Matches: 137, Mismatches: 28, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 137 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (44 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAG
Found at i:84057943 original size:45 final size:44
Alignment explanation
Indices: 84057812--84058127 Score: 213
Period size: 44 Copynumber: 6.9 Consensus size: 44
84057802 CGTATCACTA
* * *
84057812 ATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTT
* *
84057856 ATCTCCGTGAAGTTGCAGTGGAGCCGATTGAAGCTACAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTT
* * *
84057900 ATCTCCCTGAAGTTACAATGGATGCAGATTGAAGCAACAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGA-GCAGATTGAAGCTACAAATCTT
** * * * *
84057945 ATAC-CTTTGAAGTTGCAGTGG-GTCGGATTAAATCTACCATAGTAAGTTTT
1 AT-CTCCCTGAAGTTGCAGTGGAG-CAGATTGAAGCTA-C--A--AA-TCTT
* ** * * * *
84057995 ATTTCCCAAAAGTTACAGTGGAACAGATTAAAACTACAAGCTACAGATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGA-T-----T-GAAGCTACAAATCTT
* * * *
84058046 ATCTCCGTGAAATTACAGTGGAGCAGATTGAAGATACAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTT
** * *
84058090 ATCTCCCTGAAGTTGCAGCAGAGTAGATTGAAACTACA
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
84058128 CTTCCTATAC
Statistics
Matches: 206, Mismatches: 48, Indels: 36
0.71 0.17 0.12
Matches are distributed among these distances:
43 1 0.00
44 109 0.53
45 37 0.18
46 1 0.00
47 1 0.00
49 2 0.01
50 21 0.10
51 25 0.12
52 1 0.00
54 1 0.00
56 2 0.01
57 5 0.02
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTT
Found at i:84058600 original size:13 final size:13
Alignment explanation
Indices: 84058582--84058607 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84058572 GAGACAAACA
84058582 TGCAAAGAACAGT
1 TGCAAAGAACAGT
84058595 TGCAAAGAACAGT
1 TGCAAAGAACAGT
84058608 AGAAAAACAA
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:0.46, C:0.15, G:0.23, T:0.15
Consensus pattern (13 bp):
TGCAAAGAACAGT
Found at i:84059651 original size:19 final size:19
Alignment explanation
Indices: 84059627--84059663 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
84059617 TATTTTTCTA
84059627 TTTATTTGTTTAT-TACTTC
1 TTTATTT-TTTATATACTTC
84059646 TTTATTTTTTATATACTT
1 TTTATTTTTTATATACTT
84059664 AAAAATTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.19, C:0.08, G:0.03, T:0.70
Consensus pattern (19 bp):
TTTATTTTTTATATACTTC
Found at i:84064094 original size:21 final size:20
Alignment explanation
Indices: 84064061--84064100 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
84064051 CCATGATTCC
84064061 AAAATAAAAATAAATAAAAT
1 AAAATAAAAATAAATAAAAT
84064081 AAAATAATAAATAAATAAAA
1 AAAATAA-AAATAAATAAAA
84064101 AGTCTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (20 bp):
AAAATAAAAATAAATAAAAT
Found at i:84064101 original size:17 final size:17
Alignment explanation
Indices: 84064061--84064100 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
84064051 CCATGATTCC
84064061 AAAAT-AAA-AATAAAT
1 AAAATAAAATAATAAAT
84064076 AAAATAAAATAATAAAT
1 AAAATAAAATAATAAAT
84064093 -AAATAAAA
1 AAAATAAAA
84064101 AGTCTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.22
16 11 0.48
17 7 0.30
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAATAAAATAATAAAT
Found at i:84068454 original size:42 final size:41
Alignment explanation
Indices: 84068383--84068520 Score: 143
Period size: 44 Copynumber: 3.2 Consensus size: 41
84068373 TCTTACTTGT
* * * *
84068383 AATCAAATATCGATGCCACTATCCTAGACAAGGTCTTATACGA
1 AATCAAATA-CGATGCCA-TGTCCCAGACATGGTCTTACACGA
84068426 AATCAAATACGATGCCGATGTCCCAGACATGGTCTTACACGTA
1 AATCAAATACGATGCC-ATGTCCCAGACATGGTCTTACACG-A
* * *
84068469 AATCTCAAAT-TGATGCTAATGTCCCAGACGTGGTCTTACACGA
1 AA--TCAAATACGATGC-CATGTCCCAGACATGGTCTTACACGA
84068512 AATCAAATA
1 AATCAAATA
84068521 TCGAAATCCT
Statistics
Matches: 82, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
41 6 0.07
42 26 0.32
43 16 0.20
44 28 0.34
45 6 0.07
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (41 bp):
AATCAAATACGATGCCATGTCCCAGACATGGTCTTACACGA
Found at i:84070468 original size:20 final size:21
Alignment explanation
Indices: 84070433--84070472 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
84070423 CACCTAATGA
84070433 ATTTATTTCTTAAACAAAAAG
1 ATTTATTTCTTAAACAAAAAG
*
84070454 ATTTA-TTCTTGAACAAAAA
1 ATTTATTTCTTAAACAAAAA
84070473 TGAAGGCCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (21 bp):
ATTTATTTCTTAAACAAAAAG
Found at i:84071532 original size:3 final size:3
Alignment explanation
Indices: 84071526--84071555 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
84071516 AAACATATAC
84071526 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
84071556 GATGCATACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:84072294 original size:17 final size:17
Alignment explanation
Indices: 84072253--84072294 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
84072243 ATAACATTAA
*
84072253 AAATATATATAATATAT
1 AAATATATACAATATAT
*
84072270 AAACATATACAATATAT
1 AAATATATACAATATAT
*
84072287 ACATATAT
1 AAATATAT
84072295 TGGAGATAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATATACAATATAT
Found at i:84072486 original size:20 final size:19
Alignment explanation
Indices: 84072461--84072507 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
84072451 AGAAAACGAG
84072461 ACAAAAAA-AAACTAAGTATA
1 ACAAAAAATAAACTAA-TA-A
*
84072481 ACAAAATAATAAAGTAATAA
1 ACAAAA-AATAAACTAATAA
84072501 ACAAAAA
1 ACAAAAA
84072508 GGACTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 13 0.54
21 4 0.17
22 6 0.25
ACGTcount: A:0.72, C:0.09, G:0.04, T:0.15
Consensus pattern (19 bp):
ACAAAAAATAAACTAATAA
Found at i:84073052 original size:10 final size:10
Alignment explanation
Indices: 84073029--84073071 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
84073019 AGGTAACTTT
84073029 TATTTT-TT-
1 TATTTTATTA
84073037 TATTTTATTA
1 TATTTTATTA
84073047 TATTTTATTA
1 TATTTTATTA
84073057 TATGTTTATATA
1 TAT-TTTAT-TA
84073069 TAT
1 TAT
84073072 ACGTATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 6 0.19
9 2 0.06
10 13 0.42
11 5 0.16
12 5 0.16
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (10 bp):
TATTTTATTA
Found at i:84073052 original size:18 final size:22
Alignment explanation
Indices: 84073029--84073071 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 22
84073019 AGGTAACTTT
84073029 TATTTT-TT-TAT-TTTAT-TA
1 TATTTTATTATATGTTTATATA
84073047 TATTTTATTATATGTTTATATA
1 TATTTTATTATATGTTTATATA
84073069 TAT
1 TAT
84073072 ACGTATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 6 0.29
19 2 0.10
20 3 0.14
21 5 0.24
22 5 0.24
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (22 bp):
TATTTTATTATATGTTTATATA
Done.