Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 296 of 345
Found at i:100375508 original size:21 final size:21
Alignment explanation
Indices: 100375483--100375526 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
100375473 AAACCATCCA
100375483 AAAATACAATACTACTTAATC
1 AAAATACAATACTACTTAATC
*
100375504 AAAATGCAATACTACTTAATC
1 AAAATACAATACTACTTAATC
100375525 AA
1 AA
100375527 TACTACTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.52, C:0.18, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAATACAATACTACTTAATC
Found at i:100384378 original size:26 final size:22
Alignment explanation
Indices: 100384329--100384374 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
100384319 TTGGAAGCGC
100384329 ATGTAAGTATTAAATAAAATAT
1 ATGTAAGTATTAAATAAAATAT
100384351 ATGTAAGTATTAAATAAAATAT
1 ATGTAAGTATTAAATAAAATAT
100384373 AT
1 AT
100384375 ATATATACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (22 bp):
ATGTAAGTATTAAATAAAATAT
Found at i:100385022 original size:18 final size:18
Alignment explanation
Indices: 100384999--100385035 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
100384989 TGCAGGTGCT
* *
100384999 TATCCTAGCCTTTATATG
1 TATCCTAACCCTTATATG
100385017 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
100385035 T
1 T
100385036 TTCTTTTTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:100385510 original size:62 final size:60
Alignment explanation
Indices: 100385390--100385511 Score: 156
Period size: 62 Copynumber: 2.0 Consensus size: 60
100385380 TATATTTGTA
* ***
100385390 TAAACTATTTTTATATTATTTCATTTAATAAAATAAAAGTTATTTTGAATATTTTAATAG
1 TAAACTATTTTTATATTATTTCATTTAATAAAATAAAAATTATTTTGAATAAGGTAATAG
* *
100385450 TAAATTATTTTTATATT-TTGTCTTATTTAATAAAATAAAAATTCTTTTGAATAAGGTAATAG
1 TAAACTATTTTTATATTATT-TC--ATTTAATAAAATAAAAATTATTTTGAATAAGGTAATAG
100385512 AATTAATGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
59 2 0.04
60 18 0.34
62 33 0.62
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (60 bp):
TAAACTATTTTTATATTATTTCATTTAATAAAATAAAAATTATTTTGAATAAGGTAATAG
Found at i:100388442 original size:125 final size:125
Alignment explanation
Indices: 100388220--100388742 Score: 746
Period size: 125 Copynumber: 4.2 Consensus size: 125
100388210 CTAAAGCCAA
* *
100388220 TCAGGAACTACTGTAGAAAAAGAGCGTCGACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTG
1 TCAGGAACTACTGTAAAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTG
* * * **
100388285 CATCCTACTTGAAGCATTTTTTACACTATTTTTTAGAACTTTCTTCTCAAAATTATTTTT
66 CATCCTGCTTGAAGCATTTTTGACACTATTTTTCAGAACCGTCTTCTCAAAATTATTTTT
* *
100388345 TCAGGAACTAATGTAGAAAAAA-AGCGTCCACATGGGAGCTTTTTTCA-TAAATTTTGCTGACAG
1 TCAGGAACTACTGTA-AAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGT-AATTTTGCTGACAG
* *
100388408 TGCATCCTGCTTGAAGCGTTTTTGACATTATTTTTCAGAACCGTCTTCTCAAAATTATTTTT
64 TGCATCCTGCTTGAAGCATTTTTGACACTATTTTTCAGAACCGTCTTCTCAAAATTATTTTT
* * *
100388470 TCAGGAACTACTGTAAAAAAAGAGTGTCCACGTGGGAGCTTTTTTTAGTAATTTTGTTGACAGTG
1 TCAGGAACTACTGTAAAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTG
*
100388535 CATCCTGCTTGAAGCATCTTTT-ACACTATTTTTCAAAACCGTCTTCTCAAAATTATTTTT
66 CATCCTGCTTGAAGCAT-TTTTGACACTATTTTTCAGAACCGTCTTCTCAAAATTATTTTT
* * * *
100388595 TTAGGAACTACTCTAAAAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACACTG
1 TCAGGAACTACTGTAAAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTG
* * * *
100388660 CATCCTGCTTGAAGCGTTTTTGATACTATTTTTTCAGAACTGTCTTCTCAAAATTAATTTT
66 CATCCTGCTTGAAGCATTTTTGACACTA-TTTTTCAGAACCGTCTTCTCAAAATTATTTTT
* * *
100388721 TCTGAAACTATTGTAACAAAAA
1 TCAGGAACTACTGTAA-AAAAA
100388743 AAAAAATCCT
Statistics
Matches: 354, Mismatches: 36, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
124 11 0.03
125 288 0.81
126 50 0.14
127 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (125 bp):
TCAGGAACTACTGTAAAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTG
CATCCTGCTTGAAGCATTTTTGACACTATTTTTCAGAACCGTCTTCTCAAAATTATTTTT
Found at i:100388871 original size:34 final size:33
Alignment explanation
Indices: 100388824--100388957 Score: 142
Period size: 34 Copynumber: 3.9 Consensus size: 33
100388814 TAAACACAAA
*
100388824 AATTATTTAAAAAAAACTAAACCCTAATTTAATT
1 AATT-TTTTAAAAAAACTAAACCCTAATTTAATT
* *
100388858 AATTTTCTTAAAAAATCTAAATCCTAATTTAATT
1 AATTTT-TTAAAAAAACTAAACCCTAATTTAATT
* *** *
100388892 TATTTATTTAAAACCCCTAAAACCTAATTTAATT
1 AATTT-TTTAAAAAAACTAAACCCTAATTTAATT
*
100388926 AATTTTTTAAAAAAATTCTAAACCTTAATTTA
1 AATTTTTTAAAAAAA--CTAAACCCTAATTTA
100388958 TTTTTTAAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 7
0.80 0.14 0.07
Matches are distributed among these distances:
33 9 0.11
34 59 0.72
35 14 0.17
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (33 bp):
AATTTTTTAAAAAAACTAAACCCTAATTTAATT
Found at i:100388967 original size:28 final size:29
Alignment explanation
Indices: 100388920--100388977 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
100388910 AAAACCTAAT
100388920 TTAATTAATTTTTTAAAAAAATTC-TAAACC
1 TTAATTAATTTTTT--AAAAATTCTTAAACC
*
100388950 TTAATTTATTTTTT-AAAATTCTTAAACC
1 TTAATTAATTTTTTAAAAATTCTTAAACC
100388978 CTAAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 7 0.27
28 6 0.23
30 13 0.50
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (29 bp):
TTAATTAATTTTTTAAAAATTCTTAAACC
Found at i:100396174 original size:126 final size:124
Alignment explanation
Indices: 100396025--100396419 Score: 472
Period size: 126 Copynumber: 3.2 Consensus size: 124
100396015 TTTTGTTTTT
* * * *
100396025 TTTTTCTACAGTAGTT-TCAGAAAAATTAATTTTGAGAAGACAGTTTTGAAAAGATAATGTCAAA
1 TTTTTCTACAGTAGTTCT-TGAAAAAATAATTTTGAGAAGAC-GTTTTGAAAAAATAGTGT-AAA
* *
100396089 AACACTTCAAGCAGGATGCACTGTTAGTAAAATTACTGAAAAAAGCTCCCACATGAATGCTA
63 AACACTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACATGAACGCTA
* * *
100396151 TTTTTCTACAGTAGTTCTTGAAAAAATAAATTTGAGAAGACTGTTCTAAAAAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGAC-GTTTTGAAAAAATAGTGT-AAAA
* * * *
100396216 ACACTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAATCTCCCACGTGGACGCTC
64 ACACTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACATGAACGCTA
* *
100396277 TTTTTCTACAGTGGTTCCT-AAAAAATAATTTTGAGAAGACGATTTTGAAAAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACG-TTTTGAAAAAATAGTGTAAAAA
** * * * * ** * *
100396341 TGCTTCAAGCAGGATGCACTATCA-AAAAATTAATGAAAAAAGCTCTCATGTGGACGCTT
65 CACTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACATGAACGCTA
* *
100396400 TTTTTCTACGGTAGGTCTTG
1 TTTTTCTACAGTAGTTCTTG
100396420 CTTGGCCTTA
Statistics
Matches: 233, Mismatches: 33, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
123 44 0.19
124 27 0.12
125 35 0.15
126 126 0.54
127 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (124 bp):
TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGTTTTGAAAAAATAGTGTAAAAAC
ACTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACATGAACGCTA
Found at i:100400098 original size:48 final size:49
Alignment explanation
Indices: 100400046--100400257 Score: 171
Period size: 52 Copynumber: 4.2 Consensus size: 49
100400036 TTGTACATTG
*** *
100400046 TCACATATCACACACCGAAGCCATAGCTTTGTTATGGTCTTATACGG-A
1 TCACATATCACACACCGAAGCCATAGCCCAGATATGGTCTTATACGGAA
* *
100400094 TCAC--ATCACACACCGATGCCATATCCCAGATATGGTCTTATACGGAA
1 TCACATATCACACACCGAAGCCATAGCCCAGATATGGTCTTATACGGAA
* * * *
100400141 TCACATTATCATGTCATACCGATGCCATAACCCAGCTATGGTCTTATACGGGAA
1 TCACA-TATCA---CACACCGAAGCCATAGCCCAGATATGGTCTTATAC-GGAA
* * * * * *
100400195 -CAAATATCACATTGCTCTGATGCCATAGCCCAGCTATGGTCTTATACAGAA
1 TCACATATCACA---CACCGAAGCCATAGCCCAGATATGGTCTTATACGGAA
*
100400246 GCACATATCACA
1 TCACATATCACA
100400258 TCTTTTTCGT
Statistics
Matches: 136, Mismatches: 16, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
46 35 0.26
47 5 0.04
48 4 0.03
49 2 0.01
50 4 0.03
51 3 0.02
52 44 0.32
53 35 0.26
54 4 0.03
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (49 bp):
TCACATATCACACACCGAAGCCATAGCCCAGATATGGTCTTATACGGAA
Found at i:100400115 original size:46 final size:47
Alignment explanation
Indices: 100400052--100400191 Score: 129
Period size: 46 Copynumber: 2.9 Consensus size: 47
100400042 ATTGTCACAT
*** *
100400052 ATCACACACCGAAGCCATAGCTTTGTTATGGTCTTATACGG-ATCAC
1 ATCACACACCGAAGCCATAGCCCAGATATGGTCTTATACGGAATCAC
* *
100400098 ATCACACACCGATGCCATATCCCAGATATGGTCTTATACGGAATCAC
1 ATCACACACCGAAGCCATAGCCCAGATATGGTCTTATACGGAATCAC
* * * *
100400145 ATTATCATGTCATACCGATGCCATAACCCAGCTATGGTCTTATACGG
1 ---ATCA---CACACCGAAGCCATAGCCCAGATATGGTCTTATACGG
100400192 GAACAAATAT
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
46 35 0.45
47 5 0.06
50 4 0.05
53 34 0.44
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (47 bp):
ATCACACACCGAAGCCATAGCCCAGATATGGTCTTATACGGAATCAC
Found at i:100401907 original size:21 final size:21
Alignment explanation
Indices: 100401881--100401923 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
100401871 CATAGATACA
100401881 TGAAATACATTATGGATTTTC
1 TGAAATACATTATGGATTTTC
100401902 TGAAATACATTATGGATTTTC
1 TGAAATACATTATGGATTTTC
100401923 T
1 T
100401924 CAAGTTCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (21 bp):
TGAAATACATTATGGATTTTC
Found at i:100407577 original size:46 final size:46
Alignment explanation
Indices: 100407517--100407654 Score: 159
Period size: 46 Copynumber: 2.8 Consensus size: 46
100407507 GTCATATATC
* *
100407517 ACACACCGAAGCCATAGCCCTGCTATGGTCTTATACGGATCACATT
1 ACACACCGATGCCATAGCCCAGCTATGGTCTTATACGGATCACATT
* *
100407563 ACACACCGATGCCATATCCCAGATATGGTCTTATACGGAATCACATT
1 ACACACCGATGCCATAGCCCAGCTATGGTCTTATACGG-ATCACATT
* *
100407610 ATCATGTCATATCGATGCCATAGCCCAACTATGGTCTTATACGGA
1 A-CA---C--ACCGATGCCATAGCCCAGCTATGGTCTTATACGGA
100407655 AACACATATC
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
46 34 0.44
47 9 0.12
48 2 0.03
51 1 0.01
52 1 0.01
53 30 0.39
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (46 bp):
ACACACCGATGCCATAGCCCAGCTATGGTCTTATACGGATCACATT
Found at i:100410375 original size:24 final size:24
Alignment explanation
Indices: 100410348--100410395 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
100410338 GTCTTAGGTT
100410348 TCATTCCCCTTAGGTATTTAGGGG
1 TCATTCCCCTTAGGTATTTAGGGG
*
100410372 TCATTGCCCTTAGGTATTTAGGGG
1 TCATTCCCCTTAGGTATTTAGGGG
100410396 GTTTAGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.38
Consensus pattern (24 bp):
TCATTCCCCTTAGGTATTTAGGGG
Found at i:100414006 original size:49 final size:49
Alignment explanation
Indices: 100413820--100414011 Score: 233
Period size: 49 Copynumber: 3.9 Consensus size: 49
100413810 TAGCTAGGTC
* * * *
100413820 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGAT
1 GCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TTGGTT
* * * *
100413870 -CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTAGGTC
1 GCA--TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT-GGTT
* * *
100413921 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTT
1 GCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTT
*
100413970 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
100414012 GTTTGGCTAC
Statistics
Matches: 122, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
49 43 0.35
50 41 0.34
51 36 0.30
52 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
GCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTT
Found at i:100415947 original size:13 final size:13
Alignment explanation
Indices: 100415931--100415963 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
100415921 TTTAATTAAA
*
100415931 TTAGTTAATTAGT
1 TTAGATAATTAGT
100415944 TTAGATAATTAGT
1 TTAGATAATTAGT
100415957 TTA-ATAA
1 TTAGATAA
100415964 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:100422924 original size:50 final size:50
Alignment explanation
Indices: 100422865--100422964 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
100422855 TCTCTTATAT
100422865 AAATTTATAAGCATCTTCAGGTGTCTTATTGTTGATAGTTCCACCAACGG
1 AAATTTATAAGCATCTTCAGGTGTCTTATTGTTGATAGTTCCACCAACGG
100422915 AAATTTATAAGCATCTTCAGGTGTCTTATTGTTGATAGTTCCACCAACGG
1 AAATTTATAAGCATCTTCAGGTGTCTTATTGTTGATAGTTCCACCAACGG
100422965 CTGCGTTAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (50 bp):
AAATTTATAAGCATCTTCAGGTGTCTTATTGTTGATAGTTCCACCAACGG
Found at i:100433497 original size:7 final size:7
Alignment explanation
Indices: 100433485--100433527 Score: 86
Period size: 7 Copynumber: 6.1 Consensus size: 7
100433475 TAAATCAAGG
100433485 TTTGTAA
1 TTTGTAA
100433492 TTTGTAA
1 TTTGTAA
100433499 TTTGTAA
1 TTTGTAA
100433506 TTTGTAA
1 TTTGTAA
100433513 TTTGTAA
1 TTTGTAA
100433520 TTTGTAA
1 TTTGTAA
100433527 T
1 T
100433528 ATTTGTCACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (7 bp):
TTTGTAA
Found at i:100434761 original size:132 final size:132
Alignment explanation
Indices: 100434522--100434767 Score: 350
Period size: 132 Copynumber: 1.9 Consensus size: 132
100434512 TGATTATACA
* * * *
100434522 TTTAAAAATTCTTTAAAACGAAGACGAGATTCGATATTTGGCAATTCGCGGAAAAGTGCCCTAAC
1 TTTAAAAATTCTTTAAAACGAAGACAAGATTCGATATTTGACAATTCACGGAAAAGTACCCTAAC
* *
100434587 ATGTTGGGTTACAATTTCGCGTTTGCTCGAAATAATCGAATATCCCTTCAAACTTTCACTCATGC
66 ATGTTGGGTTACAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAACTTTCACTCATGC
100434652 CT
131 CT
* * **
100434654 TTTAAAAATTCTTTAAAACGAAGGCAA-AGTTTGATATTTGACAATTCACGGAATCGTACCCTAA
1 TTTAAAAATTCTTTAAAACGAAGACAAGA-TTCGATATTTGACAATTCACGGAAAAGTACCCTAA
* * **
100434718 CGTGTTGGGTTGCAATTTCTTGTTTGCTCAAAATAATCAAATATCCCTTC
65 CATGTTGGGTTACAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTC
100434768 GAGATTCCAT
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
131 1 0.01
132 98 0.99
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (132 bp):
TTTAAAAATTCTTTAAAACGAAGACAAGATTCGATATTTGACAATTCACGGAAAAGTACCCTAAC
ATGTTGGGTTACAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAACTTTCACTCATGC
CT
Found at i:100434792 original size:132 final size:133
Alignment explanation
Indices: 100434520--100434814 Score: 319
Period size: 132 Copynumber: 2.2 Consensus size: 133
100434510 TATGATTATA
* * * * *
100434520 CATT-TAAAAATTCTTTAAAACGAAGAC-GAGATTCGATATTTGGCAATTCGCGGAAAAGTGCCC
1 CATTCTAAAAATTCTTTAAAACGAAGGCAAAGATTCGATATTTGACAATTCACGGAAAAGTACCC
* * *
100434583 TAACATGTTGGGTTACAATTTCGCGTTTGCTCGAAATAATCGAATATCCCTTCAAACTTTCACTC
66 TAACATGTTGGGTTACAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAACTTCCACTC
*
100434648 ATG
131 AGG
* * * **
100434651 CCTTTTAAAAATTCTTTAAAACGAAGGCAAAG-TTTGATATTTGACAATTCACGGAATCGTACCC
1 CATTCTAAAAATTCTTTAAAACGAAGGCAAAGATTCGATATTTGACAATTCACGGAAAAGTACCC
* * ** * *
100434715 TAACGTGTTGGGTTGCAATTTCTTGTTTGCTCAAAATAATCAAATATCCCTTCGAGA-TTCCATT
66 TAACATGTTGGGTTACAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTC-AAACTTCCACT
*
100434779 TAGG
130 CAGG
* * *
100434783 TATTCTAAAAAAATCCTCTAAAACGAAGGCAA
1 CATTCT--AAAAATTCTTTAAAACGAAGGCAA
100434815 TACTCGGTGT
Statistics
Matches: 134, Mismatches: 25, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
131 3 0.02
132 105 0.78
133 4 0.03
134 22 0.16
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.32
Consensus pattern (133 bp):
CATTCTAAAAATTCTTTAAAACGAAGGCAAAGATTCGATATTTGACAATTCACGGAAAAGTACCC
TAACATGTTGGGTTACAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAACTTCCACTC
AGG
Found at i:100436589 original size:19 final size:19
Alignment explanation
Indices: 100436565--100436611 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
100436555 CTTCCTTGCC
100436565 TTTGCATT-CATCCCATGCA
1 TTTGCATTGCATCCCAT-CA
**
100436584 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATCCCATCA
100436603 TTTGCATTG
1 TTTGCATTG
100436612 AATTTCCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (19 bp):
TTTGCATTGCATCCCATCA
Found at i:100443926 original size:27 final size:27
Alignment explanation
Indices: 100443878--100444035 Score: 173
Period size: 27 Copynumber: 5.9 Consensus size: 27
100443868 GCGAGGCTGC
* *
100443878 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
100443905 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
100443931 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
100443958 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
100443985 CAGATATATATGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
100444012 CAGATAATTGTGGCATAGCTACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
100444036 AGACGCTTCC
Statistics
Matches: 113, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
26 10 0.09
27 98 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:100443968 original size:54 final size:54
Alignment explanation
Indices: 100443896--100444035 Score: 228
Period size: 54 Copynumber: 2.6 Consensus size: 54
100443886 GTGACGAAGT
* *
100443896 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
*
100443950 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATATGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
*
100444004 CACCAGATCAGATAATTGTGGCATAGCTACCA
1 CACCAGATCAGATAATTGTGGCATAGCCACCA
100444036 AGACGCTTCC
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 76 0.94
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
Found at i:100447865 original size:48 final size:48
Alignment explanation
Indices: 100447799--100447967 Score: 184
Period size: 48 Copynumber: 3.6 Consensus size: 48
100447789 AAGCTGACGC
* *
100447799 CATGTCCTAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* ** * *
100447847 CATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * * * *
100447893 CATGTACCAGACATGTCTTTA-ACTGGCTGGTATATCTTGAGGCTGATG
1 CATGTCCCAGACATGTC-TTACACTAGCTTGTATATCTCGAGGCCGATG
100447941 CAT-TACCCAGACATGTCTTACACTAGC
1 CATGT-CCCAGACATGTCTTACACTAGC
100447968 ACACATATCA
Statistics
Matches: 97, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
46 33 0.34
47 10 0.10
48 54 0.56
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
Found at i:100448643 original size:20 final size:20
Alignment explanation
Indices: 100448618--100448656 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
100448608 AAAATTTCAA
100448618 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
100448638 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
100448657 AATGGTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:100450527 original size:16 final size:16
Alignment explanation
Indices: 100450495--100450539 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
100450485 CCATTAACAA
* *
100450495 AGCCCAAAACTCTGTT
1 AGCCCAAAACCCCGTT
100450511 AGCCCAAAACCCCGTT
1 AGCCCAAAACCCCGTT
*
100450527 ATACCCAAAACCC
1 A-GCCCAAAACCC
100450540 TTAGCCTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.36, C:0.40, G:0.09, T:0.16
Consensus pattern (16 bp):
AGCCCAAAACCCCGTT
Found at i:100451034 original size:15 final size:14
Alignment explanation
Indices: 100451014--100451049 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
100451004 CACAAGAGAA
100451014 ACAGATTACAAATT
1 ACAGATTACAAATT
*
100451028 CACAGATTACAGATT
1 -ACAGATTACAAATT
100451043 ACAGATT
1 ACAGATT
100451050 TTTTTAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (14 bp):
ACAGATTACAAATT
Found at i:100451041 original size:7 final size:7
Alignment explanation
Indices: 100451014--100451049 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
100451004 CACAAGAGAA
100451014 ACAGATT
1 ACAGATT
*
100451021 ACAAATT
1 ACAGATT
100451028 CACAGATT
1 -ACAGATT
100451036 ACAGATT
1 ACAGATT
100451043 ACAGATT
1 ACAGATT
100451050 TTTTTAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (7 bp):
ACAGATT
Found at i:100455253 original size:6 final size:6
Alignment explanation
Indices: 100455228--100455274 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
100455218 ATTGAGTCCA
*
100455228 TTTA-T TTTA-T TTTA-T TTTATT TTTATT TTTAGT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
100455273 TT
1 TT
100455275 CCTAGACCTC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 14 0.36
6 25 0.64
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:100455265 original size:18 final size:17
Alignment explanation
Indices: 100455228--100455274 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
100455218 ATTGAGTCCA
100455228 TTTA-TTTTA-TTTTAT
1 TTTATTTTTATTTTTAT
100455243 TTTATTTTTATTTTTAGT
1 TTTATTTTTATTTTTA-T
100455261 TTTATTTTTATTTT
1 TTTATTTTTATTTT
100455275 CCTAGACCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.14
16 5 0.17
17 5 0.17
18 15 0.52
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (17 bp):
TTTATTTTTATTTTTAT
Found at i:100460110 original size:46 final size:46
Alignment explanation
Indices: 100460055--100460218 Score: 172
Period size: 46 Copynumber: 3.5 Consensus size: 46
100460045 CACTAGGATG
*
100460055 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTC
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTC
* * * * *
100460101 GTTGAGTTGAGTCCAAGTTC-GTGA--GATGTAACTAGGCATCCGAACTC
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCCGAACTC
* * * *
100460148 GTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTC
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTC
*
100460194 GTTGAGTTGAGTCTGAGTTCACTTA
1 GTTGAGTTGAGTCCGAGTTCACTTA
100460219 GGGGCGGGTT
Statistics
Matches: 95, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 50 0.53
47 28 0.29
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
GTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTC
Found at i:100462897 original size:25 final size:26
Alignment explanation
Indices: 100462864--100462912 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
100462854 TAGAGATGCA
100462864 GCAGTAGATCTGAA-GAA-AGCTCCG
1 GCAGTAGATCTGAAGGAAGAGCTCCG
100462888 GCAGATAGATCTGAAGGAAGAGCTC
1 GCAG-TAGATCTGAAGGAAGAGCTC
100462913 GGCTAGACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.18
25 10 0.45
26 3 0.14
27 5 0.23
ACGTcount: A:0.35, C:0.18, G:0.31, T:0.16
Consensus pattern (26 bp):
GCAGTAGATCTGAAGGAAGAGCTCCG
Found at i:100463470 original size:1 final size:1
Alignment explanation
Indices: 100463464--100463547 Score: 132
Period size: 1 Copynumber: 84.0 Consensus size: 1
100463454 GTTGTGTGTG
* * * *
100463464 AAAAAAAGAAAAAAAAATACAAAAAAAAAAAAAAAAAAAAAAATAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
100463529 AAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAA
100463548 TTTGCGATGT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 75 1.00
ACGTcount: A:0.95, C:0.01, G:0.01, T:0.02
Consensus pattern (1 bp):
A
Found at i:100470264 original size:104 final size:105
Alignment explanation
Indices: 100470084--100470351 Score: 450
Period size: 104 Copynumber: 2.6 Consensus size: 105
100470074 TAACCGTTAT
* **
100470084 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
100470149 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
100470188 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
100470253 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
* **
100470293 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
100470352 TTATATACAA
Statistics
Matches: 154, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
104 82 0.53
105 71 0.46
106 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.19
Consensus pattern (105 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:100470710 original size:29 final size:29
Alignment explanation
Indices: 100470677--100470740 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
100470667 TAATCCACCA
100470677 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
100470706 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
100470736 CCCAA
1 CCCAA
100470741 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:100470714 original size:30 final size:30
Alignment explanation
Indices: 100470684--100470740 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
100470674 CCACCCAACT
100470684 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
100470713 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
100470741 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:100474199 original size:48 final size:48
Alignment explanation
Indices: 100474119--100474236 Score: 166
Period size: 48 Copynumber: 2.5 Consensus size: 48
100474109 AACGCCATGT
* * *
100474119 CCCAGAAAAGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCA-TA
1 CCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATTA
* * *
100474166 TCCTAGACATGTCTTACACTGGCTGGTATATCTCGAGGCTGATGCATTA
1 -CCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATTA
100474215 CCCAGACATGTCTTACACTAGC
1 CCCAGACATGTCTTACACTAGC
100474237 ACAAATATCA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
48 59 0.97
49 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (48 bp):
CCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATTA
Found at i:100474883 original size:20 final size:20
Alignment explanation
Indices: 100474858--100474896 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
100474848 AAAATTTCAA
100474858 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
100474878 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
100474897 AATGGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:100476502 original size:27 final size:27
Alignment explanation
Indices: 100476446--100476573 Score: 132
Period size: 27 Copynumber: 4.8 Consensus size: 27
100476436 ATACTTATAA
* * *
100476446 TGGCAAACCCCAA-TCACTAAACCAAC
1 TGGCGAACCCCAACTCGCCAAACCAAC
* *
100476472 TGGCAAACCCCAGCTCGCCAAACCAAC
1 TGGCGAACCCCAACTCGCCAAACCAAC
* *
100476499 TGGCGTACCCCAACTAGCCAAACCAAC
1 TGGCGAACCCCAACTCGCCAAACCAAC
* *
100476526 TAGCGAAGCCCAACTCGCCAAACCAAC
1 TGGCGAACCCCAACTCGCCAAACCAAC
*** *
100476553 CAACGAACCCCAGCTCGCCAA
1 TGGCGAACCCCAACTCGCCAA
100476574 TTCGCCAAAC
Statistics
Matches: 86, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 12 0.14
27 74 0.86
ACGTcount: A:0.36, C:0.42, G:0.13, T:0.09
Consensus pattern (27 bp):
TGGCGAACCCCAACTCGCCAAACCAAC
Found at i:100476526 original size:13 final size:13
Alignment explanation
Indices: 100476508--100476552 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
100476498 CTGGCGTACC
100476508 CCAACTAGCCAAA
1 CCAACTAGCCAAA
* *
100476521 CCAACTAGCGAAGC
1 CCAACTAGCCAA-A
*
100476535 CCAACTCGCCAAA
1 CCAACTAGCCAAA
100476548 CCAAC
1 CCAAC
100476553 CAACGAACCC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 16 0.62
14 10 0.38
ACGTcount: A:0.40, C:0.42, G:0.11, T:0.07
Consensus pattern (13 bp):
CCAACTAGCCAAA
Found at i:100477192 original size:17 final size:18
Alignment explanation
Indices: 100477167--100477200 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
100477157 ATTGATTTTA
100477167 TGTTAGTAAA-TAATTAT
1 TGTTAGTAAATTAATTAT
*
100477184 TGTTGGTAAATTAATTA
1 TGTTAGTAAATTAATTA
100477201 AGTTATCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (18 bp):
TGTTAGTAAATTAATTAT
Found at i:100481287 original size:22 final size:23
Alignment explanation
Indices: 100481232--100481288 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
100481222 CAAAGAATAA
* *
100481232 AAAACTAAAATAAACCTAAAGCCT
1 AAAACTAGAA-AAACCTAAAGACT
**
100481256 AAAAAGAGAAAAA-CTAAAGACT
1 AAAACTAGAAAAACCTAAAGACT
100481278 AAAACTAGAAA
1 AAAACTAGAAA
100481289 GAAAATTATA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
22 17 0.63
23 3 0.11
24 7 0.26
ACGTcount: A:0.65, C:0.14, G:0.09, T:0.12
Consensus pattern (23 bp):
AAAACTAGAAAAACCTAAAGACT
Found at i:100481552 original size:21 final size:21
Alignment explanation
Indices: 100481510--100481554 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
100481500 AATATACTCT
* *
100481510 ATCTTCAAGGTATGTTGCGAC
1 ATCTTCAAGCTATGTGGCGAC
* *
100481531 ATCTTCAAGCTGTGTGGTGAC
1 ATCTTCAAGCTATGTGGCGAC
100481552 ATC
1 ATC
100481555 AAAGGCAGTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.33
Consensus pattern (21 bp):
ATCTTCAAGCTATGTGGCGAC
Found at i:100483791 original size:28 final size:28
Alignment explanation
Indices: 100483759--100483814 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
100483749 ATTTATGCAC
100483759 AAAATTCATGTAATAAAGCAAAAATTTG
1 AAAATTCATGTAATAAAGCAAAAATTTG
*
100483787 AAAATTCATGTAATAAAGCAAAATTTTG
1 AAAATTCATGTAATAAAGCAAAAATTTG
100483815 CATATTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (28 bp):
AAAATTCATGTAATAAAGCAAAAATTTG
Found at i:100488583 original size:27 final size:27
Alignment explanation
Indices: 100488552--100488607 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
100488542 GAACAGAACT
100488552 CTTGTATAGATTCTCTATAAATAGGAA
1 CTTGTATAGATTCTCTATAAATAGGAA
*
100488579 CTTGTATTGATTCTCTATAAATAGGAA
1 CTTGTATAGATTCTCTATAAATAGGAA
100488606 CT
1 CT
100488608 ATGTGTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.39
Consensus pattern (27 bp):
CTTGTATAGATTCTCTATAAATAGGAA
Found at i:100491798 original size:6 final size:6
Alignment explanation
Indices: 100491784--100491821 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
100491774 TGGTCGAGAA
*
100491784 GAAGAT GAAGTT GAAGAT GAAGAT GAAGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
100491822 GGAGGAGCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.34, T:0.18
Consensus pattern (6 bp):
GAAGAT
Found at i:100496392 original size:28 final size:28
Alignment explanation
Indices: 100496361--100496433 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
100496351 TACTCAATGC
*
100496361 CTCGCACACTAAGTGCCATACTCGATAT
1 CTCGCACACTAAGTGCCACACTCGATAT
* *
100496389 CTCGCAAACTAAGTGCCACACTTGATAT
1 CTCGCACACTAAGTGCCACACTCGATAT
** *
100496417 CTTACACACTAACTGCC
1 CTCGCACACTAAGTGCC
100496434 GTACATAGCC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.30, C:0.33, G:0.12, T:0.25
Consensus pattern (28 bp):
CTCGCACACTAAGTGCCACACTCGATAT
Found at i:100496488 original size:39 final size:40
Alignment explanation
Indices: 100496421--100496513 Score: 125
Period size: 39 Copynumber: 2.4 Consensus size: 40
100496411 TGATATCTTA
* * * *
100496421 CACACTAACTGCCGTACATAGCCGAAGCTATCTCCAATCG
1 CACACTAAGTGCCATACATAGCCAAAGCTAACTCCAATCG
* *
100496461 CACACTAAGTGCCATA-ATAGCCAAAGCTAAGTCGAATCG
1 CACACTAAGTGCCATACATAGCCAAAGCTAACTCCAATCG
100496500 CACACTAAGTGCCA
1 CACACTAAGTGCCA
100496514 CAAATAACCG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 33 0.70
40 14 0.30
ACGTcount: A:0.34, C:0.31, G:0.16, T:0.18
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCAAAGCTAACTCCAATCG
Found at i:100504181 original size:20 final size:20
Alignment explanation
Indices: 100504158--100504219 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
100504148 TTCATGTAAC
100504158 CAATAGTTCATCCGTATAAA
1 CAATAGTTCATCCGTATAAA
*
100504178 CAATAGTTCATCAGTA-ATAA
1 CAATAGTTCATCCGTATA-AA
* * *
100504198 CAGTAATTCATCCGTATCAA
1 CAATAGTTCATCCGTATAAA
100504218 CA
1 CA
100504220 CATATCTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.03
20 34 0.97
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (20 bp):
CAATAGTTCATCCGTATAAA
Found at i:100504422 original size:23 final size:23
Alignment explanation
Indices: 100504392--100504468 Score: 113
Period size: 23 Copynumber: 3.4 Consensus size: 23
100504382 TGATGAACAA
*
100504392 TAAGCTCTATTGAGCTGAAACGG
1 TAAGCTCTATCGAGCTGAAACGG
*
100504415 TAAGCTCTATCGAGCT-AAACAG
1 TAAGCTCTATCGAGCTGAAACGG
100504437 TAAGCTC-ATACGAGCTGAAACGG
1 TAAGCTCTAT-CGAGCTGAAACGG
100504460 TAAGCTCTA
1 TAAGCTCTA
100504469 ATGAGCTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.04
22 18 0.38
23 27 0.56
24 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (23 bp):
TAAGCTCTATCGAGCTGAAACGG
Found at i:100504439 original size:22 final size:23
Alignment explanation
Indices: 100504378--100504491 Score: 108
Period size: 23 Copynumber: 4.9 Consensus size: 23
100504368 AGCTACTCCT
* *
100504378 GAGCTGATGAACAATAAGCTCTATT
1 GAGCTGA--AACAGTAAGCTCTATC
*
100504403 GAGCTGAAACGGTAAGCTCTATC
1 GAGCTGAAACAGTAAGCTCTATC
100504426 GAGCT-AAACAGTAAGCTC-ATAC
1 GAGCTGAAACAGTAAGCTCTAT-C
*
100504448 GAGCTGAAACGGTAAGCTCTAAT-
1 GAGCTGAAACAGTAAGCTCT-ATC
* *
100504471 GAGCTAAAAATAGTAAGCTCT
1 GAGCT-GAAACAGTAAGCTCT
100504492 TATAAGCTAT
Statistics
Matches: 76, Mismatches: 8, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
21 2 0.03
22 18 0.24
23 35 0.46
24 12 0.16
25 9 0.12
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCTATC
Found at i:100504666 original size:23 final size:24
Alignment explanation
Indices: 100504633--100504688 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
100504623 ACATTTTATT
*
100504633 ATCA-ATA-ATTCAATT-TATCAA
1 ATCATATACATTCAATTCAATCAA
*
100504654 ATCATATACATTCAATTCAATTAA
1 ATCATATACATTCAATTCAATCAA
100504678 AT-ATATACATT
1 ATCATATACATT
100504689 TAAATACTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 4 0.13
22 3 0.10
23 17 0.57
24 6 0.20
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.39
Consensus pattern (24 bp):
ATCATATACATTCAATTCAATCAA
Found at i:100509896 original size:13 final size:13
Alignment explanation
Indices: 100509880--100509912 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
100509870 TTTAATTAAA
*
100509880 TTAGTTAATTAGT
1 TTAGATAATTAGT
100509893 TTAGATAATTAGT
1 TTAGATAATTAGT
100509906 TTA-ATAA
1 TTAGATAA
100509913 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:100513226 original size:55 final size:55
Alignment explanation
Indices: 100513152--100513258 Score: 128
Period size: 55 Copynumber: 1.9 Consensus size: 55
100513142 GACTGCCAAA
* *
100513152 ACAACACGGGCGTTCGACACGCCCGTAT-TAGAGAACCATGGTCGAACCTGTTAAG
1 ACAACACGGGCGTTCGACACACCCGTATCTA-ACAACCATGGTCGAACCTGTTAAG
* * * *
100513207 ACAACACGGGTGTGT-GACACACCCGTGTCTAACACCCATGGTCGAGCCTGTT
1 ACAACACGGGCGT-TCGACACACCCGTATCTAACAACCATGGTCGAACCTGTT
100513259 CAATTACCAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
55 41 0.93
56 3 0.07
ACGTcount: A:0.26, C:0.29, G:0.25, T:0.20
Consensus pattern (55 bp):
ACAACACGGGCGTTCGACACACCCGTATCTAACAACCATGGTCGAACCTGTTAAG
Found at i:100515198 original size:5 final size:5
Alignment explanation
Indices: 100515188--100515280 Score: 73
Period size: 5 Copynumber: 17.0 Consensus size: 5
100515178 TGAATCCTCC
100515188 TATTT TATTTT TATTTT TATTT T-TATT TATTCT TATTTT TATTT TATTT
1 TATTT TA-TTT TA-TTT TATTT TAT-TT TATT-T TA-TTT TATTT TATTT
*
100515237 TA-TT TATTT TATTCT TATTTT TCTTT TGATTTT TATTT TCATTT
1 TATTT TATTT TATT-T TA-TTT TATTT T-A-TTT TATTT T-ATTT
100515281 CAATTTTCTT
Statistics
Matches: 75, Mismatches: 2, Indels: 21
0.77 0.02 0.21
Matches are distributed among these distances:
4 5 0.07
5 34 0.45
6 28 0.37
7 8 0.11
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:100515201 original size:6 final size:6
Alignment explanation
Indices: 100515190--100515280 Score: 89
Period size: 6 Copynumber: 15.3 Consensus size: 6
100515180 AATCCTCCTA
*
100515190 TTTTAT TTTTAT TTTTAT TTTTA- -TTTAT TCTTAT TTTTA- TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * * * *
100515235 TTTATTT ATTTTAT TCTTAT TTTTCT TTTGAT TTTTAT TTTCAT TT
1 TTT-TAT -TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
100515281 CAATTTTCTT
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
4 4 0.06
5 5 0.07
6 53 0.77
7 4 0.06
8 3 0.04
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:100515217 original size:22 final size:22
Alignment explanation
Indices: 100515191--100515280 Score: 96
Period size: 22 Copynumber: 4.1 Consensus size: 22
100515181 ATCCTCCTAT
100515191 TTTATTTTTATTTTTATTTTTA
1 TTTATTTTTATTTTTATTTTTA
*
100515213 TTTATTCTTATTTTTA-TTTTA
1 TTTATTTTTATTTTTATTTTTA
* *
100515234 TTT-TATTTA-TTTTATTCTTA
1 TTTATTTTTATTTTTATTTTTA
* *
100515254 TTTTTCTTTTGATTTTTATTTTCA
1 TTTAT-TTTT-ATTTTTATTTTTA
100515278 TTT
1 TTT
100515281 CAATTTTCTT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
19 5 0.09
20 11 0.20
21 9 0.16
22 18 0.32
23 1 0.02
24 12 0.21
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (22 bp):
TTTATTTTTATTTTTATTTTTA
Found at i:100518180 original size:13 final size:13
Alignment explanation
Indices: 100518164--100518196 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
100518154 TTTAATTAAA
*
100518164 TTAGTTAATTAGT
1 TTAGATAATTAGT
100518177 TTAGATAATTAGT
1 TTAGATAATTAGT
100518190 TTA-ATAA
1 TTAGATAA
100518197 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:100521677 original size:13 final size:13
Alignment explanation
Indices: 100521659--100521684 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
100521649 TAGTTTACCG
100521659 AAATTATTATAAT
1 AAATTATTATAAT
100521672 AAATTATTATAAT
1 AAATTATTATAAT
100521685 TATGTTTTTG
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:0.00, T:0.46
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:100523680 original size:24 final size:25
Alignment explanation
Indices: 100523653--100523701 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
100523643 CTTTTTTTAT
*
100523653 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
100523677 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
100523702 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:100523694 original size:25 final size:23
Alignment explanation
Indices: 100523665--100523729 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
100523655 AATAAAAAAC
*
100523665 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
100523690 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
100523711 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
100523730 AATAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:100523728 original size:19 final size:20
Alignment explanation
Indices: 100523691--100523729 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
100523681 TCAAATACAT
100523691 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
100523711 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
100523730 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:100527462 original size:35 final size:35
Alignment explanation
Indices: 100527416--100527484 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
100527406 GGAATCAGGC
*
100527416 TGTAATGGTTATTCAATGGAATATATTTTACAATT
1 TGTAATGGTTATTCAATGGAATAGATTTTACAATT
*
100527451 TGTAATGGTTATTCAATGGAATAGGTTTTACAAT
1 TGTAATGGTTATTCAATGGAATAGATTTTACAAT
100527485 CAACCGAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.43
Consensus pattern (35 bp):
TGTAATGGTTATTCAATGGAATAGATTTTACAATT
Found at i:100529987 original size:3 final size:3
Alignment explanation
Indices: 100529979--100530004 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
100529969 AAGACCTTGA
100529979 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
100530005 GACATATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:100531248 original size:38 final size:35
Alignment explanation
Indices: 100531190--100531261 Score: 83
Period size: 36 Copynumber: 2.0 Consensus size: 35
100531180 GTTTAATTGA
* *
100531190 GTTTATTATATATATTAATAAATTTATATTTTAAATT
1 GTTTATTACATATATTAAT-AATTTAT-TTATAAATT
100531227 GTTT-TTACATATATTGCAATAATTTATTTATAAAT
1 GTTTATTACATATATT--AATAATTTATTTATAAAT
100531262 AAATCAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 17 0.55
37 11 0.35
38 3 0.10
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (35 bp):
GTTTATTACATATATTAATAATTTATTTATAAATT
Found at i:100533089 original size:27 final size:27
Alignment explanation
Indices: 100533054--100533107 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
100533044 ATATTAACAG
*
100533054 CACAGCCTTAAATTCTAACAATTTAGT
1 CACAACCTTAAATTCTAACAATTTAGT
*
100533081 CACAACCTTAAATTCTAACAGTTTAGT
1 CACAACCTTAAATTCTAACAATTTAGT
100533108 GGGTATCAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (27 bp):
CACAACCTTAAATTCTAACAATTTAGT
Found at i:100536682 original size:17 final size:17
Alignment explanation
Indices: 100536660--100536693 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
100536650 ATGAAAATTA
100536660 ATCTTAGAAGATTTCAT
1 ATCTTAGAAGATTTCAT
100536677 ATCTTAGAAGATTTCAT
1 ATCTTAGAAGATTTCAT
100536694 TTTGTAATTT
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:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
ATCTTAGAAGATTTCAT
Found at i:100537519 original size:43 final size:43
Alignment explanation
Indices: 100537461--100537547 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
100537451 TGAAAGAGAA
100537461 ATATTTACTCAAATGTAGTGGGATATGGAGTTACTTTTGAAAT
1 ATATTTACTCAAATGTAGTGGGATATGGAGTTACTTTTGAAAT
*
100537504 ATATTTACTCGAATGTAGTGGGATATGGAGTTACTTTTGAAAT
1 ATATTTACTCAAATGTAGTGGGATATGGAGTTACTTTTGAAAT
100537547 A
1 A
100537548 ATGTTTGTAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.39
Consensus pattern (43 bp):
ATATTTACTCAAATGTAGTGGGATATGGAGTTACTTTTGAAAT
Found at i:100543680 original size:27 final size:27
Alignment explanation
Indices: 100543624--100543683 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
100543614 TCAGATGATA
* * *
100543624 CAGCAGCAGCAACAACAACAGCATCCG
1 CAGCAGCAGCAACAACAACAACAACAG
**
100543651 CAGCAGCAGCAACGGCAACAACAACAG
1 CAGCAGCAGCAACAACAACAACAACAG
100543678 CAGCAG
1 CAGCAG
100543684 GTACAAATGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.35, G:0.22, T:0.02
Consensus pattern (27 bp):
CAGCAGCAGCAACAACAACAACAACAG
Found at i:100544201 original size:21 final size:21
Alignment explanation
Indices: 100544176--100544228 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 21
100544166 GACCCAGCAA
100544176 CAGCAACAGTTGCAACTGCAG
1 CAGCAACAGTTGCAACTGCAG
*
100544197 CAGC-A-A-TTGCAATTGCAG
1 CAGCAACAGTTGCAACTGCAG
* *
100544215 CCGCAGCAGTTGCA
1 CAGCAACAGTTGCA
100544229 GAATCAGCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 14 0.54
19 1 0.04
20 2 0.08
21 9 0.35
ACGTcount: A:0.30, C:0.28, G:0.25, T:0.17
Consensus pattern (21 bp):
CAGCAACAGTTGCAACTGCAG
Found at i:100554464 original size:34 final size:35
Alignment explanation
Indices: 100554420--100554486 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
100554410 CTGTAAAATG
*
100554420 TTTTCCGTAAAATGAATT-CTGGAAAATATTTTAC
1 TTTTCAGTAAAATGAATTACTGGAAAATATTTTAC
*
100554454 TTTTCAGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCAGTAAAATGAATTACTGGAAAATATTTT
100554487 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (35 bp):
TTTTCAGTAAAATGAATTACTGGAAAATATTTTAC
Found at i:100555860 original size:27 final size:27
Alignment explanation
Indices: 100555830--100555899 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
100555820 AATAATCAAT
*
100555830 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
100555857 TCAATATCTAACCAATTCAAGACATATA
1 TCAATATCCAA-CAATTCAAAACATATA
*
100555885 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
100555900 CTAAAATCTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:100561439 original size:21 final size:20
Alignment explanation
Indices: 100561399--100561436 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
100561389 TCATAAGGGA
*
100561399 GAGAACATGAAAATAAAATT
1 GAGAACATGAAAAAAAAATT
100561419 GAGAACATGAAAAAAAAA
1 GAGAACATGAAAAAAAAA
100561437 ATTAAGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.66, C:0.05, G:0.16, T:0.13
Consensus pattern (20 bp):
GAGAACATGAAAAAAAAATT
Found at i:100565164 original size:27 final size:27
Alignment explanation
Indices: 100565059--100565157 Score: 110
Period size: 27 Copynumber: 3.7 Consensus size: 27
100565049 ACACGCTAGA
* * *
100565059 AAATAGAATCCTTTGTGGTAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* *
100565086 AAATGGAAACCTTTGTGGCAACCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* * *
100565113 AAATAGAAGCCTTTGTAGCGATCTAT-
1 AAATGGAAGCCTTTGTGGCAATCTATG
100565139 AAACTGGAAGCCTTTGTGG
1 AAA-TGGAAGCCTTTGTGG
100565158 TGATCTAAGG
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 3 0.05
27 57 0.95
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.30
Consensus pattern (27 bp):
AAATGGAAGCCTTTGTGGCAATCTATG
Found at i:100565840 original size:18 final size:20
Alignment explanation
Indices: 100565793--100565842 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
100565783 CATGTATTTA
100565793 ATATTAAATAGATATTTATT
1 ATATTAAATAGATATTTATT
*
100565813 AT-TTAGTAAAAGATATTTATT
1 ATATTA--AATAGATATTTATT
100565834 A-ATTAAATA
1 ATATTAAATA
100565843 ATTATATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
19 6 0.24
20 2 0.08
21 17 0.68
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (20 bp):
ATATTAAATAGATATTTATT
Found at i:100566033 original size:10 final size:9
Alignment explanation
Indices: 100566018--100566052 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
100566008 TAAAGTAAAT
100566018 AAAGAAAGAA
1 AAAGAAAG-A
100566028 AAAGAAAGA
1 AAAGAAAGA
*
100566037 AAACAAAGA
1 AAAGAAAGA
100566046 AAAGAAA
1 AAAGAAA
100566053 CAGAATGCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAGAAAGA
Found at i:100567282 original size:18 final size:18
Alignment explanation
Indices: 100567255--100567353 Score: 85
Period size: 18 Copynumber: 5.6 Consensus size: 18
100567245 TAAATAAAAG
*
100567255 TACT-AATAATTGACTGC
1 TACTGAATAATTGACTGT
*
100567272 TACTGAATAATTAACTGT
1 TACTGAATAATTGACTGT
**
100567290 TACTGAATAAACGACTGT
1 TACTGAATAATTGACTGT
* * *
100567308 TACTGAATAAATGATTAT
1 TACTGAATAATTGACTGT
* * * *
100567326 TACTG-TTGACTGACTGA
1 TACTGAATAATTGACTGT
100567343 TACTGAATAAT
1 TACTGAATAAT
100567354 AAAGATTAAC
Statistics
Matches: 63, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
17 15 0.24
18 48 0.76
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.35
Consensus pattern (18 bp):
TACTGAATAATTGACTGT
Found at i:100568621 original size:27 final size:26
Alignment explanation
Indices: 100568576--100568638 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
100568566 GTGGCAAACA
* * **
100568576 CTGAAGGGATAGTATGTATGGTGAAC
1 CTGAAGGAATAGTAAGTATAATGAAC
*
100568602 TCTGAAGGAATGGTAAGTATAATGAAC
1 -CTGAAGGAATAGTAAGTATAATGAAC
100568629 CTTGAAGGAA
1 C-TGAAGGAA
100568639 AAGCCTTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.37, C:0.08, G:0.30, T:0.25
Consensus pattern (26 bp):
CTGAAGGAATAGTAAGTATAATGAAC
Found at i:100571929 original size:6 final size:6
Alignment explanation
Indices: 100571888--100571945 Score: 55
Period size: 6 Copynumber: 9.5 Consensus size: 6
100571878 TATTAAAGAG
* * * *
100571888 AAATAA AAAGT-A AATTAA AAAGAT AAATAA ATATAA AAATAA AAATAAA
1 AAATAA AAA-TAA AAATAA AAATAA AAATAA AAATAA AAATAA AAAT-AA
100571937 AAATAA AAA
1 AAATAA AAA
100571946 ATCTTCAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
5 1 0.02
6 33 0.80
7 7 0.17
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:100571938 original size:7 final size:7
Alignment explanation
Indices: 100571903--100571947 Score: 56
Period size: 7 Copynumber: 6.1 Consensus size: 7
100571893 AAAAGTAAAT
100571903 TAAAAAGA
1 TAAAAA-A
100571911 TAAATAAA
1 TAAA-AAA
100571919 TATAAAAA
1 TA-AAAAA
100571927 T-AAAAA
1 TAAAAAA
100571933 TAAAAAA
1 TAAAAAA
100571940 TAAAAAA
1 TAAAAAA
100571947 T
1 T
100571948 CTTCAAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
6 6 0.18
7 13 0.38
8 11 0.32
9 4 0.12
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (7 bp):
TAAAAAA
Found at i:100585215 original size:12 final size:14
Alignment explanation
Indices: 100585198--100585231 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
100585188 ATGGTTGTAT
100585198 ATGTAT-TC-TGGA
1 ATGTATGTCGTGGA
100585210 ATGTATGTCGTGGA
1 ATGTATGTCGTGGA
100585224 ATGTATGT
1 ATGTATGT
100585232 TCTATTGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 6 0.30
13 2 0.10
14 12 0.60
ACGTcount: A:0.24, C:0.06, G:0.29, T:0.41
Consensus pattern (14 bp):
ATGTATGTCGTGGA
Found at i:100585597 original size:27 final size:27
Alignment explanation
Indices: 100585557--100585685 Score: 150
Period size: 27 Copynumber: 4.8 Consensus size: 27
100585547 GCATTTTGTA
* *
100585557 AGCCTTTTTCGTGAACTTTGAAAGAAT
1 AGCCTTTGTGGTGAACTTTGAAAGAAT
*
100585584 AGCCATTGTGGTGAACTTTGAAAGAAT
1 AGCCTTTGTGGTGAACTTTGAAAGAAT
*
100585611 AGCCTTTGTGGCGAACTTTGAAAGAAT
1 AGCCTTTGTGGTGAACTTTGAAAGAAT
**** *
100585638 AGCCTTCACAGTGAACTCTGAAAGAAT
1 AGCCTTTGTGGTGAACTTTGAAAGAAT
* * *
100585665 AGCTTTTGAGGCGAACTTTGA
1 AGCCTTTGTGGTGAACTTTGA
100585686 GTGAACTACC
Statistics
Matches: 84, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 84 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (27 bp):
AGCCTTTGTGGTGAACTTTGAAAGAAT
Found at i:100590740 original size:36 final size:35
Alignment explanation
Indices: 100590693--100590821 Score: 127
Period size: 36 Copynumber: 3.7 Consensus size: 35
100590683 TTTAATACAT
* *
100590693 TGGCATTCTTAACATGCGAATCAGAATCAGAAATAA
1 TGGCATGCTTAACATGCGAATCAAAATCA-AAATAA
* * * *
100590729 TGGCATTCTTAACATGCAAATGAAAATAAAAAATAA
1 TGGCATGCTTAACATGCGAATCAAAAT-CAAAATAA
* * *
100590765 TGGCATGCTTAACATACGAGTCAAAATC-AATTGAA
1 TGGCATGCTTAACATGCGAATCAAAATCAAAAT-AA
*
100590800 TAGCA-GCTTAACATGCGAATCA
1 TGGCATGCTTAACATGCGAATCA
100590822 GAATATTAAC
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
34 18 0.23
35 6 0.08
36 52 0.68
37 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (35 bp):
TGGCATGCTTAACATGCGAATCAAAATCAAAATAA
Found at i:100592587 original size:35 final size:35
Alignment explanation
Indices: 100592509--100592598 Score: 108
Period size: 35 Copynumber: 2.5 Consensus size: 35
100592499 AGTAACATAA
* * * *
100592509 TTAACAAGCGAATCAAAATTAGAAATAATGGCATGT
1 TTAACATGCGAATCAAAA-TAAAAAAAATGGCATGC
* *
100592545 TTCACATGTGAATCAAAATAAAAAAAATGGCATGC
1 TTAACATGCGAATCAAAATAAAAAAAATGGCATGC
*
100592580 TTAACATGCGAGTCAAAAT
1 TTAACATGCGAATCAAAAT
100592599 CAGCTTAATA
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
35 30 0.67
36 15 0.33
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.24
Consensus pattern (35 bp):
TTAACATGCGAATCAAAATAAAAAAAATGGCATGC
Found at i:100602525 original size:22 final size:22
Alignment explanation
Indices: 100602497--100602538 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
100602487 ATATACTCAG
*
100602497 AATACTCAGAAAAGATCATTGT
1 AATACTCAAAAAAGATCATTGT
100602519 AATACTCAAAAAAGATCATT
1 AATACTCAAAAAAGATCATT
100602539 AAAATCTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.14, G:0.10, T:0.26
Consensus pattern (22 bp):
AATACTCAAAAAAGATCATTGT
Found at i:100603268 original size:37 final size:37
Alignment explanation
Indices: 100603213--100603313 Score: 112
Period size: 37 Copynumber: 2.7 Consensus size: 37
100603203 CGTTTACTTG
* * *
100603213 ATGCCATAGTCCAACTATGGTCTTACACAAAATCATA
1 ATGCCATAGCCCAGCTATGGTCTTACACAAAATCACA
**** * *
100603250 ATGCCATAGCCCAGCTATGGTCTTACATGTCATTACG
1 ATGCCATAGCCCAGCTATGGTCTTACACAAAATCACA
*
100603287 ATGCCATAGCCTAGCTATGGTCTTACA
1 ATGCCATAGCCCAGCTATGGTCTTACA
100603314 TTCCATACTT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (37 bp):
ATGCCATAGCCCAGCTATGGTCTTACACAAAATCACA
Found at i:100606733 original size:48 final size:48
Alignment explanation
Indices: 100606109--100606724 Score: 907
Period size: 48 Copynumber: 12.8 Consensus size: 48
100606099 ACGATACCTC
100606109 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATG
100606157 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATG
100606205 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATG
* * *
100606253 ATGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCATAAAG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATG
* * *
100606301 ATGCCGAAGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATG
* * *
100606349 ATACTGATGCCATG-CCCTAGACATGGCCTTACACTGGCTCACATAATG
1 ATGCCGATGCCATGTCCC-AGACATGGTCTTACACTGGCTCACATAATG
*
100606397 ATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATG
* * *
100606445 ATGCCGAAGCCATGTCCCAAACATGGTCTTACACTAGG-TCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACT-GGCTCACATAATG
*
100606493 ATGCCGATGCCATGTCCTAGACATGGTCTTACAC--GCTCACATAATG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATG
* * * *
100606539 ATGCCTATGCCATGTCCCAGACATGGTCTTATACTGGCTTACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATG
*
100606587 ATGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATAACGATGCCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-A--AT---G
* * *
100606641 ATGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATG
* * *
100606689 ATACCGATGCAATGTCCCAGATATGGTCTTACACTG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTG
100606725 TTACACATAT
Statistics
Matches: 511, Mismatches: 45, Indels: 24
0.88 0.08 0.04
Matches are distributed among these distances:
45 1 0.00
46 40 0.08
47 3 0.01
48 416 0.81
49 6 0.01
51 2 0.00
53 1 0.00
54 42 0.08
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATG
Found at i:100608040 original size:15 final size:15
Alignment explanation
Indices: 100608020--100608052 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
100608010 TAATTTTACA
100608020 TATAATTTTTAAAAT
1 TATAATTTTTAAAAT
*
100608035 TATAATTTTTTAAAT
1 TATAATTTTTAAAAT
100608050 TAT
1 TAT
100608053 TTTTAAGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATAATTTTTAAAAT
Found at i:100608220 original size:23 final size:21
Alignment explanation
Indices: 100608169--100608218 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
100608159 TTTATTTGTT
100608169 AAAAA-ATGATTTATTTATTAA
1 AAAAATATGATTTATTTA-TAA
100608190 AAAAATATGACTTTATTTA-AA
1 AAAAATATGA-TTTATTTATAA
*
100608211 AAATATAT
1 AAAAATAT
100608219 ATTAAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 14 0.54
22 4 0.15
23 8 0.31
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (21 bp):
AAAAATATGATTTATTTATAA
Found at i:100619893 original size:42 final size:42
Alignment explanation
Indices: 100619834--100619913 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
100619824 CCAGTGTTAC
100619834 TTCAACCTGAGTTGGGTAAAGAATTTGTGATTTACAACTTAG
1 TTCAACCTGAGTTGGGTAAAGAATTTGTGATTTACAACTTAG
*
100619876 TTCAACCTGAGTTGGGTAAAGAATTTTTGATTTACAAC
1 TTCAACCTGAGTTGGGTAAAGAATTTGTGATTTACAAC
100619914 GACGCTTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.36
Consensus pattern (42 bp):
TTCAACCTGAGTTGGGTAAAGAATTTGTGATTTACAACTTAG
Found at i:100625123 original size:30 final size:27
Alignment explanation
Indices: 100625057--100625123 Score: 71
Period size: 30 Copynumber: 2.3 Consensus size: 27
100625047 TTTGGATATC
*
100625057 TTTAAAATTAATTTAAAAATTAATAAT
1 TTTAAAATTAATTTAAAAATTAAAAAT
*
100625084 TTATAAAAATTATATTTAAAATTTAAAAAAT
1 TT-T-AAAATTA-ATTTAAAAATT-AAAAAT
100625115 ATTTAAAAT
1 -TTTAAAAT
100625124 ATACATTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
27 2 0.06
28 1 0.03
29 7 0.21
30 15 0.45
31 6 0.18
32 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
TTTAAAATTAATTTAAAAATTAAAAAT
Found at i:100625290 original size:99 final size:102
Alignment explanation
Indices: 100625110--100625337 Score: 302
Period size: 99 Copynumber: 2.2 Consensus size: 102
100625100 TAAAATTTAA
* *
100625110 AAAATATTTAAAATATACATTTTAAATATTATAAAACAAATAATAAATTTGAAATGTCATATCTT
1 AAAAT-TTTAAAATATACATTTAAAATATTATAAAACAAATAATAAATTTGAAAGGTCATATCTT
*
100625175 TAAAAATAATATATTTTTAAAAAATT-AAAA-ATATTT
65 TAAAAATAATAAATTTTTAAAAAATTAAAAATATATTT
*
100625211 -AAATTTTAAAATATACATTTAAAATATTATAAAACTAATAATAAATTTGAAAGGTCATATCTTT
1 AAAATTTTAAAATATACATTTAAAATATTATAAAACAAATAATAAATTTGAAAGGTCATATCTTT
* * **
100625275 -AAAATATTTAAATTTTTATATTATTAAAAAATATATTT
66 AAAAATA-ATAAATTTTTAAAAAATT-AAAAATATATTT
* *
100625313 AAAATTTATAAAAAAAACATTTAAA
1 AAAATTT-TAAAATATACATTTAAA
100625338 TTTTTAAAAA
Statistics
Matches: 111, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
98 6 0.05
99 70 0.63
100 4 0.04
101 4 0.04
102 6 0.05
103 6 0.05
104 15 0.14
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (102 bp):
AAAATTTTAAAATATACATTTAAAATATTATAAAACAAATAATAAATTTGAAAGGTCATATCTTT
AAAAATAATAAATTTTTAAAAAATTAAAAATATATTT
Found at i:100625338 original size:82 final size:82
Alignment explanation
Indices: 100625185--100625340 Score: 181
Period size: 82 Copynumber: 1.9 Consensus size: 82
100625175 TAAAAATAAT
* * ** *
100625185 ATATTTTTAAAAAATTAAAAATATTTAAATTTTAAAATATACATTTAAAATATTATAAAACTAAT
1 ATATCTTTAAAAAATTAAAAATATTTAAATTTTAAAAAATACATTTAAAATATTATAAAAAAAAC
100625250 AATAAATTTGAAAGGTC
66 AATAAATTTGAAAGGTC
* * * * *
100625267 ATATCTTTAAAATATT-TAAATTTTTATATTATTAAAAAATATATTTAAAAT-TTATAAAAAAAA
1 ATATCTTTAAAAAATTAAAAATATTTAAATT-TTAAAAAATACATTTAAAATATTATAAAAAAAA
*
100625330 CATTTAAATTT
65 CA-ATAAATTT
100625341 TTAAAAAATA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
81 22 0.36
82 39 0.64
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (82 bp):
ATATCTTTAAAAAATTAAAAATATTTAAATTTTAAAAAATACATTTAAAATATTATAAAAAAAAC
AATAAATTTGAAAGGTC
Found at i:100625359 original size:21 final size:21
Alignment explanation
Indices: 100625289--100625359 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
100625279 TATTTAAATT
* * *
100625289 TTTATATTATTAAAAAATATA
1 TTTAAATTTTTAAAAAATACA
* *
100625310 TTTAAAATTTATAAAAAAAACA
1 TTT-AAATTTTTAAAAAATACA
100625332 TTTAAATTTTTAAAAAATA-A
1 TTTAAATTTTTAAAAAATACA
100625352 TTTCAAAT
1 TTT-AAAT
100625360 ATATATTTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
20 4 0.10
21 21 0.51
22 16 0.39
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTAAATTTTTAAAAAATACA
Found at i:100625373 original size:20 final size:20
Alignment explanation
Indices: 100625350--100625416 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
100625340 TTTAAAAAAT
100625350 AATTTCAAATATATATTTAA
1 AATTTCAAATATATATTTAA
* *
100625370 AATTTTAAA-AAATATTATAAA
1 AATTTCAAATATATATT-T-AA
* *
100625391 ACATTTCAAATATACATTTCA
1 A-ATTTCAAATATATATTTAA
100625412 AATTT
1 AATTT
100625417 TTTAAAATCA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
19 6 0.16
20 13 0.35
21 5 0.14
22 8 0.22
23 5 0.14
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTTCAAATATATATTTAA
Found at i:100638280 original size:27 final size:27
Alignment explanation
Indices: 100638250--100638427 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
100638240 ATATTAAGTC
* * *
100638250 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
100638277 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
100638305 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
100638332 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
100638359 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
100638386 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
100638413 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
100638428 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:100638334 original size:55 final size:54
Alignment explanation
Indices: 100638250--100638427 Score: 232
Period size: 54 Copynumber: 3.3 Consensus size: 54
100638240 ATATTAAGTC
* * *
100638250 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAA-T
* * * *
100638305 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* ** *
100638359 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
100638413 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
100638428 GTACAATTTA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:100638416 original size:81 final size:82
Alignment explanation
Indices: 100638271--100638426 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
100638261 TGCTATATAA
* *
100638271 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
100638336 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
100638353 TCAATTCGCACACTTAGTG-CATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
100638416 ACACTTAGTGC
65 ACACTTAGTGC
100638427 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 43 0.64
82 24 0.36
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:100642647 original size:46 final size:46
Alignment explanation
Indices: 100642571--100642833 Score: 339
Period size: 46 Copynumber: 5.7 Consensus size: 46
100642561 TGATGCTATA
* * *
100642571 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATGTCATGTTGCCATG
* ** *
100642617 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTTCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCATGTTGCCATG
* * *
100642664 GTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGGTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
* * *
100642710 GTATCTTTCAACCATGATCTTACACATTTCATATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
* * * *
100642756 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
*
100642802 GTATCTTTCAACCATGGTCTTACACATTTCAT
1 GTATCTTTCAACCATGGTCTTACTCATTTCAT
100642834 TTCAGAGAGC
Statistics
Matches: 195, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
46 156 0.80
47 39 0.20
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
Found at i:100649263 original size:248 final size:248
Alignment explanation
Indices: 100648822--100649301 Score: 782
Period size: 248 Copynumber: 1.9 Consensus size: 248
100648812 GTAATTTTTC
* * * *
100648822 CATAATATGATTTTTGGGTCATATTGAATAATGTGACTAATATTTGAGCTAAATTTGATATTATA
1 CATAATATGATTTTTGCGCCACATTGAATAATGTGACTAATAATTGAGCTAAATTTGATATTATA
* * *
100648887 GATCAAGAAAAATGAAGTTCGAGTCTAGATCAGGGGAAAAACAAATATTGGACAAATAGGTCTTT
66 GATCAAGAAAAACGAAGTTCGAGTCTAGATCAGGGGAAAAACAAATATTAGACAAATAGGTCCTT
* * *
100648952 TTTACCATTGTCGCATTCGAGGTAAGTTCGTATGTTAATAATGCAATATTATAGTTATATTTTAA
131 TTCACCATTGTCGCATTCGAGGTAACTTCGTATGTTAATAATGCAATACTATAGTTATATTTTAA
*
100649017 TGTTATGATATTGTATGAAATGTATGATTATTTCCATAATATTGCATTATTTA
196 TATTATGATATTGTATGAAATGTATGATTATTTCCATAATATTGCATTATTTA
*
100649070 CATAATATGATTTTTGCGCCACATTGAATAATGTGACTAATAATTGGGCTAAATTTGATATTATA
1 CATAATATGATTTTTGCGCCACATTGAATAATGTGACTAATAATTGAGCTAAATTTGATATTATA
*
100649135 GATCAAGAAAAACGAAGTTCGAGTCTAGATTAGGGGAAAAACAAATATTAGACAAATAGGTCCTT
66 GATCAAGAAAAACGAAGTTCGAGTCTAGATCAGGGGAAAAACAAATATTAGACAAATAGGTCCTT
* * * *
100649200 TTCGCCGTTGTCGCATTCGAGGTTACTTCGTAT-TTAAATAATGCAATACTATAGTTGTATTTTA
131 TTCACCATTGTCGCATTCGAGGTAACTTCGTATGTT-AATAATGCAATACTATAGTTATATTTTA
*
100649264 ATATTTTGATATTGTATGAAATGTATGATTATTTCCAT
195 ATATTATGATATTGTATGAAATGTATGATTATTTCCAT
100649302 GAGCATAATT
Statistics
Matches: 213, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
247 2 0.01
248 211 0.99
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (248 bp):
CATAATATGATTTTTGCGCCACATTGAATAATGTGACTAATAATTGAGCTAAATTTGATATTATA
GATCAAGAAAAACGAAGTTCGAGTCTAGATCAGGGGAAAAACAAATATTAGACAAATAGGTCCTT
TTCACCATTGTCGCATTCGAGGTAACTTCGTATGTTAATAATGCAATACTATAGTTATATTTTAA
TATTATGATATTGTATGAAATGTATGATTATTTCCATAATATTGCATTATTTA
Found at i:100649526 original size:43 final size:42
Alignment explanation
Indices: 100649394--100649557 Score: 195
Period size: 42 Copynumber: 3.9 Consensus size: 42
100649384 TTAGGGTTAC
100649394 TGAGATTACGTGTAAGACCATATCTAGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTAGGATATGGCATCGATA
** * * * *
100649436 TGAGACTT-CGAATAAGACTATATCTTGGATATGGCATCAATG
1 TGAGA-TTACGTGTAAGACCATATCTAGGATATGGCATCGATA
* * * *
100649478 TGAGATTTCGTGTAAGACCATAACTGGGCTATTGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTAGGATA-TGGCATCGATA
* *
100649521 CGAGATTACATGTAAGACCATATCTAGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTAGGATATGGCAT
100649558 TGGTACGGTA
Statistics
Matches: 99, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
41 2 0.02
42 61 0.62
43 36 0.36
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTAGGATATGGCATCGATA
Found at i:100649544 original size:85 final size:84
Alignment explanation
Indices: 100649394--100649557 Score: 215
Period size: 85 Copynumber: 1.9 Consensus size: 84
100649384 TTAGGGTTAC
* * *
100649394 TGAGATTACGTGTAAGACCATATCTAGGATATGGCATCGATATGAGACTTCGAATAAGACTATAT
1 TGAGATTACGTGTAAGACCATAACTAGGATATGGCATCGATACGAGACTTCGAATAAGACCATAT
*
100649459 CTTGGATATGGCATCAATG
66 CTAGGATATGGCATCAATG
* * * *
100649478 TGAGATTTCGTGTAAGACCATAACTGGGCTATTGGCATCGATACGAGA-TTAC-ATGTAAGACCA
1 TGAGATTACGTGTAAGACCATAACTAGGATA-TGGCATCGATACGAGACTT-CGA-ATAAGACCA
100649541 TATCTAGGATATGGCAT
63 TATCTAGGATATGGCAT
100649558 TGGTACGGTA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
84 30 0.43
85 39 0.57
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (84 bp):
TGAGATTACGTGTAAGACCATAACTAGGATATGGCATCGATACGAGACTTCGAATAAGACCATAT
CTAGGATATGGCATCAATG
Found at i:100654567 original size:23 final size:23
Alignment explanation
Indices: 100654540--100654583 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
100654530 TAATTATATA
100654540 GTTTATGAATG-CATGATAATTGC
1 GTTTATGAATGACATGA-AATTGC
*
100654563 GTTTATGGATGACATGAAATT
1 GTTTATGAATGACATGAAATT
100654584 ACATGAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.39
Consensus pattern (23 bp):
GTTTATGAATGACATGAAATTGC
Found at i:100659410 original size:28 final size:28
Alignment explanation
Indices: 100659361--100659442 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
100659351 GTAATCATCA
* * *
100659361 AATTAAGGCTTGTGTAATCCATTTGATT
1 AATTAAGGCTTGTGTGAGCCATTTCATT
* * *
100659389 AATTAAGGCTTATATGAGCCATTACATT
1 AATTAAGGCTTGTGTGAGCCATTTCATT
**
100659417 ACCTAAGGCTTGTGTGAGCCATTTCA
1 AATTAAGGCTTGTGTGAGCCATTTCA
100659443 AAAATGTCAG
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (28 bp):
AATTAAGGCTTGTGTGAGCCATTTCATT
Found at i:100663112 original size:39 final size:40
Alignment explanation
Indices: 100663057--100663141 Score: 100
Period size: 39 Copynumber: 2.1 Consensus size: 40
100663047 TCAAATACAT
100663057 TTAAAACAAATATTAAAACAAAAAACAAA-TAAAAATATA
1 TTAAAACAAATATTAAAACAAAAAACAAATTAAAAATATA
* * * * * *
100663096 TTAAAACAATTTTTAAAATAATACACAAATTGAAAATATA
1 TTAAAACAAATATTAAAACAAAAAACAAATTAAAAATATA
*
100663136 ATAAAA
1 TTAAAA
100663142 ATTAATTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 24 0.63
40 14 0.37
ACGTcount: A:0.66, C:0.07, G:0.01, T:0.26
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAAAAACAAATTAAAAATATA
Found at i:100663183 original size:23 final size:23
Alignment explanation
Indices: 100663157--100663201 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
100663147 TTATATTAAA
*
100663157 ATTAAAAATAAAATATAAATATG
1 ATTAAAAATAAAAAATAAATATG
*
100663180 ATTAAAAATAAAAAATATATAT
1 ATTAAAAATAAAAAATAAATAT
100663202 TTAGTATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (23 bp):
ATTAAAAATAAAAAATAAATATG
Found at i:100663186 original size:29 final size:27
Alignment explanation
Indices: 100663139--100663193 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
100663129 AAATATAATA
* *
100663139 AAAATTAATTATATTAAAATTAAAAAT
1 AAAATTAAATATATTAAAAATAAAAAT
100663166 AAAATATAAATATGATTAAAAATAAAAA
1 AAAAT-TAAATAT-ATTAAAAATAAAAA
100663194 ATATATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.21
28 6 0.25
29 13 0.54
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (27 bp):
AAAATTAAATATATTAAAAATAAAAAT
Found at i:100666092 original size:6 final size:6
Alignment explanation
Indices: 100666081--100666111 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
100666071 ATCGATGTAT
100666081 CTGCTC CTGCTC CTGCTC CTGCTC CTGCTC C
1 CTGCTC CTGCTC CTGCTC CTGCTC CTGCTC C
100666112 CACTGGCTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.16, T:0.32
Consensus pattern (6 bp):
CTGCTC
Found at i:100686460 original size:21 final size:23
Alignment explanation
Indices: 100686413--100686466 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
100686403 CATTCAAGAT
**
100686413 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
100686436 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
100686457 AAAAT-ATATA
1 AAAATAATATA
100686467 ATGTGTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:100686708 original size:29 final size:29
Alignment explanation
Indices: 100686623--100686708 Score: 81
Period size: 28 Copynumber: 3.0 Consensus size: 29
100686613 AACAAGAGTG
*
100686623 AAAAATAT-ATATA-AGAAAAATAATAAT
1 AAAAATATAATATATAGAAATATAATAAT
* * *
100686650 GAAAAAAATATTAGTATATAAATA-AA-AAT
1 -AAAAATATAATA-TATAGAAATATAATAAT
*
100686679 AAAAATATAATAAATAGAAATATAATAAT
1 AAAAATATAATATATAGAAATATAATAAT
100686708 A
1 A
100686709 GTAGAAATAT
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
27 8 0.18
28 19 0.42
29 9 0.20
30 4 0.09
31 5 0.11
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.27
Consensus pattern (29 bp):
AAAAATATAATATATAGAAATATAATAAT
Found at i:100686740 original size:15 final size:14
Alignment explanation
Indices: 100686667--100686795 Score: 79
Period size: 15 Copynumber: 8.9 Consensus size: 14
100686657 ATATTAGTAT
100686667 ATAAATAAAAATA-
1 ATAAATAAAAATAG
*
100686680 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
100686696 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
100686710 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
100686725 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
100686740 ATAAATAATAATAG
1 ATAAATAAAAATAG
*
100686754 TATTAGAATAACAA-A-
1 -A-TA-AATAAAAATAG
*
100686769 ATAAATATAAATAG
1 ATAAATAAAAATAG
100686783 A-AACATAAAAATA
1 ATAA-ATAAAAATA
100686796 ATAGCAATAA
Statistics
Matches: 93, Mismatches: 11, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
12 6 0.06
13 8 0.09
14 31 0.33
15 35 0.38
16 6 0.06
17 7 0.08
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:100686753 original size:58 final size:59
Alignment explanation
Indices: 100686667--100686794 Score: 138
Period size: 58 Copynumber: 2.2 Consensus size: 59
100686657 ATATTAGTAT
* * **
100686667 ATAAATAAAAA-TAAAAATATAATAAATAGAAATATAATAATAGTAGAAATATAAATAG
1 ATAAATAAAAATTAAAAATATAATAAATAGAAATAGAATAACAAAAGAAATATAAATAG
* * * *
100686725 ATAAATAAAAATTAGATAA-ATAAT-AATAGTATTAGAATAACAAAATAAATATAAATAG
1 ATAAATAAAAATTA-AAAATATAATAAATAGAAATAGAATAACAAAAGAAATATAAATAG
100686783 A-AACATAAAAAT
1 ATAA-ATAAAAAT
100686795 AATAGCAATA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
57 2 0.03
58 47 0.80
59 7 0.12
60 3 0.05
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (59 bp):
ATAAATAAAAATTAAAAATATAATAAATAGAAATAGAATAACAAAAGAAATATAAATAG
Found at i:100687209 original size:35 final size:34
Alignment explanation
Indices: 100687155--100687226 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 34
100687145 AATTGAAAGA
*
100687155 GAAAAGAAAATAATTCAATTCC-AATGGAAATAG
1 GAAAAGAAAATAATCCAATTCCAAATGGAAATAG
*
100687188 GAAAAGAGAGAATAATCCAATTCCAAATTGAAATAG
1 GAAAAGA-A-AATAATCCAATTCCAAATGGAAATAG
100687224 GAA
1 GAA
100687227 TCCCAAAGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 7 0.21
34 1 0.03
35 13 0.38
36 13 0.38
ACGTcount: A:0.54, C:0.10, G:0.17, T:0.19
Consensus pattern (34 bp):
GAAAAGAAAATAATCCAATTCCAAATGGAAATAG
Found at i:100687928 original size:88 final size:84
Alignment explanation
Indices: 100687717--100688030 Score: 257
Period size: 84 Copynumber: 3.7 Consensus size: 84
100687707 ATCTGATCTG
* * * * *
100687717 CTACTGCTTAGGGAGATATGATTTGTAATCTTC-AGCCCGTTTCCGTGCTGCTTAGGAGGATAAG
1 CTACTGCTTAGGGAGATAAGATCTGTAAT-TTCTAGCCTGTTTCCCTACTGCTTAGG-GGATAAG
*
100687781 GCTAGTCTTCAATCCGCTCCA
64 GCTAGTCTGCAATCCGCTCCA
*
100687802 CTACT-CTTAGGGAGATAAGATCTGTAATTT-TCAACCTGTTTCCCTACTGCTTATGGGGATAAG
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTCT-AGCCTGTTTCCCTACTGCTTA-GGGGATAAG
* **
100687865 GCTCACCGTCTGCGATCTTC-CCTA
64 GCT-A--GTCTGCAATCCGCTCC-A
* * *
100687889 CTACTGCTTAGGGAGATAAGATCTATAATTTCTAGCCTGTTTCCCTCCTGCTTAGGGGGTTAAGG
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCCTGTTTCCCTACTGCTTA-GGGGATAAGG
* * * *
100687954 CTTATGATCTTCGATCTGTTCCA
65 C-TA-G-TCTGCAATCCGCTCCA
* * * * * *
100687977 GTACTGTTTAGGG-G---GGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGG
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCCTGTTTCCCTACTGCTTAGGGG
100688031 GTTAAGACTT
Statistics
Matches: 190, Mismatches: 27, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
83 6 0.03
84 78 0.41
85 8 0.04
86 2 0.01
87 17 0.09
88 75 0.39
89 4 0.02
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (84 bp):
CTACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCCTGTTTCCCTACTGCTTAGGGGATAAGGC
TAGTCTGCAATCCGCTCCA
Found at i:100688030 original size:84 final size:84
Alignment explanation
Indices: 100687819--100688636 Score: 1014
Period size: 84 Copynumber: 9.7 Consensus size: 84
100687809 TAGGGAGATA
* * * * * ** * *
100687819 AGATCTGTAATTTT-CAACCTGTTTCCCTACTGCTTATGGGGATAAGGCTCACCGTCTGCGATCT
1 AGATCTAT-ATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCT
* *
100687883 TC-CCTACTACTGCTTAGGGAG
65 GCTCC-ACTACTGTTTAGGG-G
* * * * *
100687904 ATAAGATCTATAATTTCTAGCCTGTTTCCCTCCTGCTTAGGGGGTTAAGGCTT-ATGATCTTCGA
1 ---AGATCTATATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTG-TCTTCGA
* *
100687968 TCTGTTCCAGTACTGTTTAGGGG
62 TCTGCTCCACTACTGTTTAGGGG
* * * * * *
100687991 GGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGACTTG-GGTCTTCAATCTA
1 AGATCTATATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTG
* *
100688055 CTCCACTACTGTCTAAGGG
66 CTCCACTACTGTTTAGGGG
* * * *
100688074 AGATCTGTATTTTCCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTGTCTTTGATCTA
1 AGATCTATATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTG
*
100688139 CTCCACTACTGTTTAAGGG
66 CTCCACTACTGTTTAGGGG
* * * *
100688158 AAATTTATATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTATCTTAGATCTG
1 AGATCTATATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTG
* *
100688223 CTCTACTACTGTTTAAGGG
66 CTCCACTACTGTTTAGGGG
* * * *
100688242 AGATCTGTATTTTCCAGCCTGTTACCCTACTGTTTAGGGGGTTAAGGCTTGCTGTCTTAGATCTT
1 AGATCTATATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTG
*
100688307 CTCCAATACTGTTTAGGGG
66 CTCCACTACTGTTTAGGGG
* * *
100688326 AGATCTATATTTTCCAGCCTGTTACCCTACTACTTAGAGGGTTAAGGCTTGCTGTCTTCGATCTA
1 AGATCTATATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTG
100688391 CTCCACTACTGTTTAGGGG
66 CTCCACTACTGTTTAGGGG
* * *
100688410 AGATTTATATTTTTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTG
1 AGATCTATATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTG
* *
100688475 CTCCACTACTATCTAGGGG
66 CTCCACTACTGTTTAGGGG
* * * * *
100688494 AAATCTATATTTTCCAGCCTGTTACCCTACTGCCTAGGGGGTTAAGGCTTGTTATATTCGATCTG
1 AGATCTATATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTG
100688559 CTCCACTACTGTTTAGGGG
66 CTCCACTACTGTTTAGGGG
* * * *
100688578 AGATCTGTATTTTCTAGCCTGTTACCCTACTGCTTAAGGGGTTAAGGCTTGCTATCTTC
1 AGATCTATATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTC
100688637 AACCTGTTCT
Statistics
Matches: 640, Mismatches: 85, Indels: 14
0.87 0.12 0.02
Matches are distributed among these distances:
83 72 0.11
84 502 0.78
87 6 0.01
88 58 0.09
89 2 0.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (84 bp):
AGATCTATATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTG
CTCCACTACTGTTTAGGGG
Found at i:100695116 original size:21 final size:23
Alignment explanation
Indices: 100695069--100695122 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
100695059 CATTCAAGAT
**
100695069 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
100695092 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
100695113 AAAAT-ATATA
1 AAAATAATATA
100695123 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:100695357 original size:15 final size:15
Alignment explanation
Indices: 100695333--100695378 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
100695323 ATATAAATAG
*
100695333 AAATAAAAATATAAT
1 AAATAGAAATATAAT
100695348 AAATAGAAATATAAT
1 AAATAGAAATATAAT
100695363 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
100695379 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:100695366 original size:23 final size:23
Alignment explanation
Indices: 100695300--100695366 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
100695290 TATAAGAAAA
*
100695300 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
100695320 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
100695343 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
100695366 A
1 A
100695367 GTAGAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:100695381 original size:44 final size:44
Alignment explanation
Indices: 100695327--100695413 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
100695317 ATTAGTATAT
100695327 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
100695371 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
100695414 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:100695398 original size:15 final size:14
Alignment explanation
Indices: 100695325--100695411 Score: 61
Period size: 15 Copynumber: 6.0 Consensus size: 14
100695315 ATATTAGTAT
*
100695325 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
100695338 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
100695354 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
100695368 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
100695383 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
100695398 ATAAATAATAATAG
1 ATAAATAAAAATAG
100695412 TATTAGAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
13 3 0.05
14 20 0.33
15 34 0.57
16 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:100696003 original size:15 final size:15
Alignment explanation
Indices: 100695985--100696013 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
100695975 AATAATTTAA
100695985 TAATAAAATAAAATG
1 TAATAAAATAAAATG
100696000 TAATAAAATAAAAT
1 TAATAAAATAAAAT
100696014 CAAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
TAATAAAATAAAATG
Done.