Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 99 of 352
Found at i:31336987 original size:56 final size:56
Alignment explanation
Indices: 31336901--31337020 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
31336891 ACAAGGGATA
31336901 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
*
31336957 ATGGGCAAAATATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
31337013 ATGGGCAA
1 ATGGGCAA
31337021 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.44, C:0.08, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:31338239 original size:40 final size:39
Alignment explanation
Indices: 31338155--31338339 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
31338145 TCGAATGATG
* * * *
31338155 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
31338195 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
31338235 TCCGGGCTAAGCCCGAAGGCATTGGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
31338274 TCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGCGAGTTACTA-AA
*
31338315 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
31338340 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 35 0.29
40 74 0.61
41 12 0.10
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31338362 original size:79 final size:79
Alignment explanation
Indices: 31338202--31338372 Score: 199
Period size: 79 Copynumber: 2.2 Consensus size: 79
31338192 ATATCCGGAC
* *
31338202 TAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTACGAGT
1 TAAGATCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGT
*
31338267 TACTAAATCCGGGT
66 TACTAAATCCGAGT
* * *
31338281 TAAG-TCCTGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACG
1 TAAGATCC-GAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACG
*
31338344 AG-TAGCTATATCC-AGT
63 AGTTA-CTAAATCCGAGT
31338360 TAA-ATTCCGAAGG
1 TAAGA-TCCGAAGG
31338373 TACGTGATTT
Statistics
Matches: 79, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
78 5 0.06
79 46 0.58
80 28 0.35
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
TAAGATCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGT
TACTAAATCCGAGT
Found at i:31340532 original size:31 final size:31
Alignment explanation
Indices: 31340489--31340563 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
31340479 ACGATTACTG
*
31340489 GGCCGAAGCCTTTTCATAAACCATATCACTC
1 GGCCGAAGCCTTTTCATAAACCATATCACTA
* * *
31340520 GGCCAAAGCCTTTTCATAAATCATTTCACTA
1 GGCCGAAGCCTTTTCATAAACCATATCACTA
31340551 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
31340564 ACTGTAAACG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAACCATATCACTA
Found at i:31340634 original size:42 final size:42
Alignment explanation
Indices: 31340587--31340678 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
31340577 TGGCCCATAG
* ** *
31340587 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
31340629 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
31340671 GCCCATTT
1 GCCCATTT
31340679 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:31340867 original size:26 final size:26
Alignment explanation
Indices: 31340823--31340920 Score: 144
Period size: 26 Copynumber: 3.8 Consensus size: 26
31340813 CCTCTTTAAT
*
31340823 AACTGGGGCA-AAGCCCTTTTCAGTA
1 AACTAGGGCATAAGCCCTTTTCAGTA
*
31340848 AACTAGGGCATAAGCCCTTTTCAATA
1 AACTAGGGCATAAGCCCTTTTCAGTA
* **
31340874 AACTGGGGCATAAGCCCTTTTTGGTA
1 AACTAGGGCATAAGCCCTTTTCAGTA
31340900 AACTAGGGCATAAGCCCTTTT
1 AACTAGGGCATAAGCCCTTTT
31340921 GCACTTTTTC
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 9 0.14
26 56 0.86
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (26 bp):
AACTAGGGCATAAGCCCTTTTCAGTA
Found at i:31340901 original size:52 final size:51
Alignment explanation
Indices: 31340823--31340920 Score: 169
Period size: 52 Copynumber: 1.9 Consensus size: 51
31340813 CCTCTTTAAT
31340823 AACTGGGGCAAAGCCCTTTTCAGTAAACTAGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCAGTAAACTAGGGCATAAGCCCTTTTCAATA
**
31340874 AACTGGGGCATAAGCCCTTTTTGGTAAACTAGGGCATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTTCAGTAAACTAGGGCATAAGCCCTTTT
31340921 GCACTTTTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 10 0.23
52 34 0.77
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (51 bp):
AACTGGGGCAAAGCCCTTTTCAGTAAACTAGGGCATAAGCCCTTTTCAATA
Found at i:31341380 original size:16 final size:17
Alignment explanation
Indices: 31341359--31341398 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
31341349 TCTACCCAAA
*
31341359 TGGGCCCGAAA-CCTAT
1 TGGGCCCGAAAGCCCAT
31341375 TGGGCCCGAAAGCCCAT
1 TGGGCCCGAAAGCCCAT
31341392 TGGGCCC
1 TGGGCCC
31341399 AATTTCAGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.20, C:0.35, G:0.30, T:0.15
Consensus pattern (17 bp):
TGGGCCCGAAAGCCCAT
Found at i:31341768 original size:26 final size:28
Alignment explanation
Indices: 31341739--31341821 Score: 120
Period size: 27 Copynumber: 3.1 Consensus size: 28
31341729 GGGCATATTT
* *
31341739 GTCATTTTACCATAC-AGGG-TATTACG
1 GTCACTTTACCCTACAAGGGCTATTACG
31341765 GTCACTTTACCCTACAAGGGCT-TTACG
1 GTCACTTTACCCTACAAGGGCTATTACG
31341792 GTCACTTTACCCTACAAGGGCTA-TACG
1 GTCACTTTACCCTACAAGGGCTATTACG
31341819 GTC
1 GTC
31341822 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
26 13 0.25
27 38 0.73
28 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (28 bp):
GTCACTTTACCCTACAAGGGCTATTACG
Found at i:31341995 original size:27 final size:27
Alignment explanation
Indices: 31341969--31342097 Score: 136
Period size: 27 Copynumber: 4.8 Consensus size: 27
31341959 CTTTGTAAAT
31341969 TAGGGGTATTTTGGTAATTTTACAAA-
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * * *
31341995 TTGAGGGTATTTCGATAATTTCACAAAC
1 TAG-GGGTATTTTGGTAATTTTACAAAC
* * *
31342023 -CGATGGTATTTTGGTAGTTTTACAAAC
1 TAG-GGGTATTTTGGTAATTTTACAAAC
31342050 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * *
31342077 CAAGGGTATTTTAGTAATTTT
1 TAGGGGTATTTTGGTAATTTT
31342098 GTAAATTGAG
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
26 2 0.02
27 81 0.96
28 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:31342031 original size:54 final size:54
Alignment explanation
Indices: 31341972--31342111 Score: 174
Period size: 54 Copynumber: 2.6 Consensus size: 54
31341962 TGTAAATTAG
*
31341972 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCGA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAA
* * * * * *
31342026 TGGTATTTTGGTAGTTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGATAATTTCACAAACCAA
* **
31342080 GGGTATTTTAGTAATTTTGTAAATTGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
31342112 AAATAGTAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
53 1 0.01
54 69 0.97
55 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAA
Found at i:31342109 original size:27 final size:27
Alignment explanation
Indices: 31341887--31342138 Score: 114
Period size: 27 Copynumber: 9.3 Consensus size: 27
31341877 ATTACAAACC
* * *
31341887 AAGGGTATTTCAGTAATTTTGTAAACT
1 AAGGGTATTTTAGTAATTTTATAAATT
* * *
31341914 AATGGTATTTCTA-TAATTTTTAGAAAGTC
1 AAGGGTATTT-TAGTAA-TTTTATAAA-TT
* *
31341943 AAGGGTATTTCT-GTAACTTTGTAAATT
1 AAGGGTATTT-TAGTAATTTTATAAATT
* * *
31341970 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTAGTAATTTTATAAATT
* * * * **
31341997 GAGGGTA-TTTCGATAATTTCACAAACC
1 AAGGGTATTTTAG-TAATTTTATAAATT
* * * * * *
31342024 GATGGTATTTTGGTAGTTTTACAAACT
1 AAGGGTATTTTAGTAATTTTATAAATT
* * * **
31342051 AGGGGTATTTTGGTAATTTTACAAACC
1 AAGGGTATTTTAGTAATTTTATAAATT
*
31342078 AAGGGTATTTTAGTAATTTTGTAAATT
1 AAGGGTATTTTAGTAATTTTATAAATT
* *** * * *
31342105 GAGGGTAAAATAGTAATTCTGTAAATC
1 AAGGGTATTTTAGTAATTTTATAAATT
31342132 AAGGGTA
1 AAGGGTA
31342139 AAACAGTAAT
Statistics
Matches: 174, Mismatches: 44, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
26 5 0.03
27 137 0.79
28 18 0.10
29 14 0.08
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
AAGGGTATTTTAGTAATTTTATAAATT
Found at i:31342139 original size:27 final size:27
Alignment explanation
Indices: 31342090--31342273 Score: 242
Period size: 27 Copynumber: 6.8 Consensus size: 27
31342080 GGGTATTTTA
* * **
31342090 GTAATTTTGTAAATTGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
31342117 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
31342144 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
31342171 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
31342198 GTAATTATGTAAATCAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
31342225 GTAATTATGTAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
31342252 GTAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
31342274 CTTTGATAAT
Statistics
Matches: 140, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:31342148 original size:81 final size:81
Alignment explanation
Indices: 31342063--31342273 Score: 188
Period size: 81 Copynumber: 2.6 Consensus size: 81
31342053 GGGTATTTTG
* **** * * * * *
31342063 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATTGAGGGTAAAATAGTAATTCTGTA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAATTATGTA
31342128 AATCAAGGGTAAAACA
66 AATCAAGGGTAAAACA
* * * * *
31342144 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTATGTA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAATTATGTA
**
31342209 AATCAAGGGTAAAATG
66 AATCAAGGGTAAAACA
* ** *** * * *
31342225 GTAATTATGTAAATTGAGGGTAAAACGGTAATTCTGTAAATCGGGGGTA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTA
31342274 CTTTGATAAT
Statistics
Matches: 108, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 108 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (81 bp):
GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAATTATGTA
AATCAAGGGTAAAACA
Found at i:31342351 original size:26 final size:27
Alignment explanation
Indices: 31342280--31342368 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
31342270 GGTACTTTGA
*
31342280 TAATTTTACAAGTCGAAGGTATTTCAG
1 TAATTTTACAAATCGAAGGTATTTCAG
*
31342307 TAATTTTACAAATCGAAGGTATTTTAG
1 TAATTTTACAAATCGAAGGTATTTCAG
* * * *
31342334 TATTTTTACAAA-CTAAGGGCATTTCGG
1 TAATTTTACAAATCGAA-GGTATTTCAG
31342361 TAATTTTA
1 TAATTTTA
31342369 GTAAACTAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
26 3 0.06
27 50 0.94
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAATCGAAGGTATTTCAG
Found at i:31344638 original size:31 final size:31
Alignment explanation
Indices: 31344591--31344669 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
31344581 TTTAACGATT
*
31344591 ACTGGGCCGAAGCCTTTTCATAAACCATATC
1 ACTGGGCCAAAGCCTTTTCATAAACCATATC
* * *
31344622 ACTGTGCCAAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCAAAGCCTTTTCATAAACCATATC
31344653 ACTGGGCCAAAGCCTTT
1 ACTGGGCCAAAGCCTTT
31344670 ACTGTAAACG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (31 bp):
ACTGGGCCAAAGCCTTTTCATAAACCATATC
Found at i:31344740 original size:42 final size:42
Alignment explanation
Indices: 31344693--31344784 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
31344683 TGGCCCATAG
* * ** **
31344693 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATAACATGAAATACCAATAAATGTATGCAA
31344735 GCCCATTTCAATATAACATGAAATACCAATAAATGTATGCAA
1 GCCCATTTCAATATAACATGAAATACCAATAAATGTATGCAA
31344777 GCCCATTT
1 GCCCATTT
31344785 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATAACATGAAATACCAATAAATGTATGCAA
Found at i:31344973 original size:26 final size:26
Alignment explanation
Indices: 31344929--31345081 Score: 184
Period size: 26 Copynumber: 5.8 Consensus size: 26
31344919 CCTCTTTAAT
*
31344929 AACTGGGGCA-AAGCCCTTTTCAGTA
1 AACTAGGGCATAAGCCCTTTTCAGTA
*
31344954 AACTAGGGCATAAGCCCTTTTCAATA
1 AACTAGGGCATAAGCCCTTTTCAGTA
* *
31344980 AACTGGGGCATATTATGCCCTTTTCGGTA
1 AACTAGGGCATA--A-GCCCTTTTCAGTA
*
31345009 AACTAGGGCATAAGCCCTTTTCAATA
1 AACTAGGGCATAAGCCCTTTTCAGTA
*
31345035 AACT-GTGGCATAAGCCCTTTTCGGTA
1 AACTAG-GGCATAAGCCCTTTTCAGTA
* *
31345061 AACTAAGGAATAAGCCCTTTT
1 AACTAGGGCATAAGCCCTTTT
31345082 TCACTTCTTC
Statistics
Matches: 110, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
25 10 0.09
26 76 0.69
27 1 0.01
28 1 0.01
29 22 0.20
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (26 bp):
AACTAGGGCATAAGCCCTTTTCAGTA
Found at i:31345010 original size:55 final size:52
Alignment explanation
Indices: 31344929--31345081 Score: 236
Period size: 55 Copynumber: 2.9 Consensus size: 52
31344919 CCTCTTTAAT
*
31344929 AACTGGGGCA-AAGCCCTTTTCAGTAAACTAGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATAAGCCCTTTTCAATA
31344980 AACTGGGGCATATTATGCCCTTTTCGGTAAACTAGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATA--A-GCCCTTTTCGGTAAACTAGGGCATAAGCCCTTTTCAATA
* * *
31345035 AACTGTGGCATAAGCCCTTTTCGGTAAACTAAGGAATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATAAGCCCTTTT
31345082 TCACTTCTTC
Statistics
Matches: 94, Mismatches: 4, Indels: 7
0.90 0.04 0.07
Matches are distributed among these distances:
51 10 0.11
52 33 0.35
53 1 0.01
54 1 0.01
55 49 0.52
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATAAGCCCTTTTCAATA
Found at i:31345975 original size:27 final size:27
Alignment explanation
Indices: 31345889--31345967 Score: 124
Period size: 27 Copynumber: 2.9 Consensus size: 27
31345879 TATTCATCAT
* *
31345889 TTTACCATAC-AGGGGTATTACGGTCAC
1 TTTACCCTACAAGGGCT-TTACGGTCAC
31345916 TTTACCCTACAAGGGCTTTACGGTCAC
1 TTTACCCTACAAGGGCTTTACGGTCAC
31345943 TTTACCCTACAAGGGCTTTACGGTC
1 TTTACCCTACAAGGGCTTTACGGTC
31345968 TTTTTACCTA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 44 0.90
28 5 0.10
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (27 bp):
TTTACCCTACAAGGGCTTTACGGTCAC
Found at i:31346040 original size:27 final size:27
Alignment explanation
Indices: 31346007--31346217 Score: 163
Period size: 27 Copynumber: 7.7 Consensus size: 27
31345997 TTCATCCTAC
* **
31346007 AAGGGTATTTCAGTAATTTTGTAAACT
1 AAGGGTATTTCGGTAATTTTACAAACT
* ** * *
31346034 AATGGTATTTCTATAATTTTTAGAAAGT
1 AAGGGTATTTCGGTAA-TTTTACAAACT
* * **
31346062 CAAGGGTATTTCTGTAACTTTGTAAA-T
1 -AAGGGTATTTCGGTAATTTTACAAACT
* * *
31346089 CAGGGATATTTTGGTAATTTTACAAATT
1 AAGGG-TATTTCGGTAATTTTACAAACT
* * *
31346117 GAGGGTATTTCGGTAATTTCACAAACC
1 AAGGGTATTTCGGTAATTTTACAAACT
* *
31346144 AATGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTCGGTAATTTTACAAACT
* * *
31346171 AAGGGTATTTTGGTAACTTTACAAACC
1 AAGGGTATTTCGGTAATTTTACAAACT
**
31346198 AAGGGTATTTTAGTAATTTT
1 AAGGGTATTTCGGTAATTTT
31346218 GTAAATCGAG
Statistics
Matches: 148, Mismatches: 32, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
26 4 0.03
27 111 0.75
28 19 0.13
29 14 0.09
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (27 bp):
AAGGGTATTTCGGTAATTTTACAAACT
Found at i:31346153 original size:54 final size:54
Alignment explanation
Indices: 31346064--31346231 Score: 196
Period size: 54 Copynumber: 3.1 Consensus size: 54
31346054 TAGAAAGTCA
* ** *
31346064 AGGGTATTTCTGTAACTTTGTAAATC-AGGGATATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAACTTTACAAACCAAGGG-TATTTTGGTAATTTTACAAATTG
* * *
31346118 AGGGTATTTCGGTAA-TTTCACAAACCAATGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTCGGTAACTTT-ACAAACCAAGGGTATTTTGGTAATTTTACAAATTG
* * ** *
31346172 AGGGTATTTTGGTAACTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTCGGTAACTTTACAAACCAAGGGTATTTTGGTAATTTTACAAATTG
31346226 AGGGTA
1 AGGGTA
31346232 AAGTAGTAAT
Statistics
Matches: 96, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 3 0.03
54 87 0.91
55 6 0.06
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (54 bp):
AGGGTATTTCGGTAACTTTACAAACCAAGGGTATTTTGGTAATTTTACAAATTG
Found at i:31346229 original size:27 final size:27
Alignment explanation
Indices: 31346064--31346574 Score: 170
Period size: 27 Copynumber: 18.9 Consensus size: 27
31346054 TAGAAAGTCA
*
31346064 AGGGTATTTCT-GTAACTTTGTAAATC-
1 AGGGTATTT-TGGTAATTTTGTAAATCG
** *
31346090 AGGGATATTTTGGTAATTTTACAAATTG
1 AGGG-TATTTTGGTAATTTTGTAAATCG
* *** * *
31346118 AGGGTATTTCGGTAATTTCACAAACCA
1 AGGGTATTTTGGTAATTTTGTAAATCG
* ** *
31346145 ATGGTATTTTGGTAATTTTACAAA-CTA
1 AGGGTATTTTGGTAATTTTGTAAATC-G
* ** * *
31346172 AGGGTATTTTGGTAACTTTACAAACCA
1 AGGGTATTTTGGTAATTTTGTAAATCG
*
31346199 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
*** * * *
31346226 AGGGTAAAGTAGTAATTCTGTAAATCA
1 AGGGTATTTTGGTAATTTTGTAAATCG
*** * * *
31346253 AGGGTAAAATAGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
**** *
31346280 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
*** * * *
31346307 AGGGTAAAATAGTAATTCTGTAAGTCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
*** * *
31346334 AGGGTAAAATGGTAATTATGTAAAT-T
1 AGGGTATTTTGGTAATTTTGTAAATCG
*** *
31346360 AGGGGTAAAATGGTAATTATGTAAATCG
1 A-GGGTATTTTGGTAATTTTGTAAATCG
* *** *
31346388 GGGGTAAAATGGTAATTATGTAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
* *** *
31346415 GGGGTAAAATGGTAATTATGTAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
* *** *
31346442 GGGGTAAAATGGTAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
* * ** *
31346469 GGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
** ** **
31346496 AATGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
** * *
31346523 AGGGTATTTCAGT-ATTTT-TACAAACTA
1 AGGGTATTTTGGTAATTTTGTA-AATC-G
*
31346550 AGGGTATTTCGGTAATTTTAGTAAA
1 AGGGTATTTTGGTAATTTT-GTAAA
31346575 CTAAAGTATA
Statistics
Matches: 412, Mismatches: 61, Indels: 21
0.83 0.12 0.04
Matches are distributed among these distances:
25 1 0.00
26 15 0.04
27 382 0.93
28 10 0.02
29 2 0.00
30 2 0.00
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.35
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTGTAAATCG
Found at i:31346485 original size:54 final size:54
Alignment explanation
Indices: 31346208--31346474 Score: 363
Period size: 54 Copynumber: 4.9 Consensus size: 54
31346198 AAGGGTATTT
* * * **
31346208 TAGTAATTTTGTAAATCGAGGGTAAAGTAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTATGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGGGGGTAAAA
* * * *
31346262 TAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTATGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGGGGGTAAAA
* * * **
31346316 TAGTAATTCTGTAAGTCGAGGGTAAAATGGTAATTATGTAAATTAGGGGTAAAA
1 TAGTAATTATGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGGGGGTAAAA
* * *
31346370 TGGTAATTATGTAAATCGGGGGTAAAATGGTAATTATGTAAATCGGGGGTAAAA
1 TAGTAATTATGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGGGGGTAAAA
* *
31346424 TGGTAATTATGTAAATCGGGGGTAAAATGGTAATTCTGTAAATCGGGGGTA
1 TAGTAATTATGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGGGGGTA
31346475 CTTTGGTAAT
Statistics
Matches: 193, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 193 1.00
ACGTcount: A:0.38, C:0.06, G:0.26, T:0.30
Consensus pattern (54 bp):
TAGTAATTATGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGGGGGTAAAA
Found at i:31346485 original size:81 final size:81
Alignment explanation
Indices: 31346210--31346474 Score: 377
Period size: 81 Copynumber: 3.3 Consensus size: 81
31346200 GGGTATTTTA
* * * * * *
31346210 GTAATTTTGTAAATCGAGGGTAAAGTAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTATGTA
* *
31346275 AATCGAGGGTAAAACG
66 AATCGGGGGTAAAATG
*
31346291 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAGTCGAGGGTAAAATGGTAATTATGTA
1 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTATGTA
**
31346356 AATTAGGGGTAAAATG
66 AATCGGGGGTAAAATG
* * * * *
31346372 GTAATTATGTAAATCGGGGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTATGTA
1 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTATGTA
31346437 AATCGGGGGTAAAATG
66 AATCGGGGGTAAAATG
*
31346453 GTAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
31346475 CTTTGGTAAT
Statistics
Matches: 164, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 164 1.00
ACGTcount: A:0.38, C:0.06, G:0.26, T:0.30
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTATGTA
AATCGGGGGTAAAATG
Found at i:31346583 original size:27 final size:27
Alignment explanation
Indices: 31346499--31346583 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 27
31346489 CAAGTCGAAT
* *
31346499 GTATTTCAGTAATTTTACAAA-TCGAGG
1 GTATTTCAGTAATTTTACAAACT-AAGA
* *
31346526 GTATTTCAGTATTTTTACAAACTAAGG
1 GTATTTCAGTAATTTTACAAACTAAGA
* *
31346553 GTATTTCGGTAATTTTAGTAAACTAA-A
1 GTATTTCAGTAATTTTA-CAAACTAAGA
31346580 GTAT
1 GTAT
31346584 ACTAAACAGG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
27 42 0.84
28 8 0.16
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.40
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAACTAAGA
Found at i:31351529 original size:49 final size:49
Alignment explanation
Indices: 31351475--31351603 Score: 163
Period size: 49 Copynumber: 2.6 Consensus size: 49
31351465 AAGTGAGAGC
* * *
31351475 CAGTGTAAGTCCTGTTTGGGACATGGCATCGGCCT-TAAGATATGTAAG-
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAAG-TATGTAAGT
* *
31351523 CTAGTGTAAGACCTGTCTGGGACATTGCATCGGCCTCGATGTATGTAAGT
1 C-AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAAGTATGTAAGT
* *
31351573 CAGTGTAAGACCTATCTGGGGCATGGCATCG
1 CAGTGTAAGACCTGTCTGGGACATGGCATCG
31351604 ACTTAGATGT
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
48 1 0.01
49 66 0.94
50 3 0.04
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.28
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAAGTATGTAAGT
Found at i:31351613 original size:49 final size:48
Alignment explanation
Indices: 31351426--31351613 Score: 150
Period size: 49 Copynumber: 3.9 Consensus size: 48
31351416 ATGTGTGTGC
* * * ** *
31351426 CAGTGTAAGACTTGTCTAGGACACGGCATCGACACAGA--TAAGTGAGAG
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACTTAGATGTATGT-A-AG
* * *
31351474 CCAGTGTAAGTCCTGTTTGGGACATGGCATCGGCCTTA-A-GATATGTAAG
1 -CAGTGTAAGACCTGTCTGGGACATGGCATC-GACTTAGATG-TATGTAAG
* * * *
31351523 CTAGTGTAAGACCTGTCTGGGACATTGCATCGGCCTCGATGTATGTAAG
1 C-AGTGTAAGACCTGTCTGGGACATGGCATCGACTTAGATGTATGTAAG
* *
31351572 TCAGTGTAAGACCTATCTGGGGCATGGCATCGACTTAGATGT
1 -CAGTGTAAGACCTGTCTGGGACATGGCATCGACTTAGATGT
31351614 GAGAGCCAGT
Statistics
Matches: 111, Mismatches: 21, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
48 4 0.04
49 97 0.87
50 6 0.05
51 4 0.04
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (48 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACTTAGATGTATGTAAG
Found at i:31360562 original size:42 final size:43
Alignment explanation
Indices: 31360499--31360594 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 43
31360489 AATTTACAAT
* *
31360499 TTACGTGTAAGACCATGTCTGGGACA-TCGACATCG-TATTTAA
1 TTACATGTAAGACCATATCTGGGACAGT-GACATCGATATTTAA
* * * *
31360541 TTTCATGTAAGACCCTATCTGGGACAGTGGCATCGATATTTGA
1 TTACATGTAAGACCATATCTGGGACAGTGACATCGATATTTAA
31360584 TTACATGTAAG
1 TTACATGTAAG
31360595 TCCACGTCTA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 28 0.62
43 17 0.38
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (43 bp):
TTACATGTAAGACCATATCTGGGACAGTGACATCGATATTTAA
Found at i:31363735 original size:29 final size:29
Alignment explanation
Indices: 31363653--31363750 Score: 103
Period size: 29 Copynumber: 3.4 Consensus size: 29
31363643 CAATTATAAT
* * *
31363653 CCCATTAAGCCC-AATCATATTCATATGG
1 CCCATTAGGCCCAAATCACATTTATATGG
* * *
31363681 CCCATTAGACCCAAATCACCTGTATATGG
1 CCCATTAGGCCCAAATCACATTTATATGG
*
31363710 CCCATTAGGCCTAAATCACATTTATAAT--
1 CCCATTAGGCCCAAATCACATTTAT-ATGG
31363738 CCCATTAGGCCCA
1 CCCATTAGGCCCA
31363751 GCCACATTCA
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
28 22 0.39
29 33 0.58
30 2 0.04
ACGTcount: A:0.32, C:0.31, G:0.11, T:0.27
Consensus pattern (29 bp):
CCCATTAGGCCCAAATCACATTTATATGG
Found at i:31363864 original size:19 final size:19
Alignment explanation
Indices: 31363817--31363867 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
31363807 ATTTTTGCCT
31363817 ATTCTGGGCCCA-ATAGCCC
1 ATTCT-GGCCCATATAGCCC
* *
31363836 A-TCGGGCCCATTTAGCCC
1 ATTCTGGCCCATATAGCCC
31363854 ATTCTGGCCCATAT
1 ATTCTGGCCCATAT
31363868 GGACAAATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 6 0.23
18 9 0.35
19 11 0.42
ACGTcount: A:0.20, C:0.35, G:0.20, T:0.25
Consensus pattern (19 bp):
ATTCTGGCCCATATAGCCC
Found at i:31363987 original size:8 final size:8
Alignment explanation
Indices: 31363974--31364024 Score: 59
Period size: 8 Copynumber: 6.4 Consensus size: 8
31363964 GTATCCAAAC
31363974 TTTCGGCT
1 TTTCGGCT
*
31363982 TTTCGGCA
1 TTTCGGCT
*
31363990 TTTCAGCT
1 TTTCGGCT
*
31363998 TTTCGGCA
1 TTTCGGCT
31364006 TTTCGG-T
1 TTTCGGCT
31364013 ATTTCGGCT
1 -TTTCGGCT
31364022 TTT
1 TTT
31364025 GCCAATACAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
8 34 0.97
9 1 0.03
ACGTcount: A:0.08, C:0.22, G:0.22, T:0.49
Consensus pattern (8 bp):
TTTCGGCT
Found at i:31364004 original size:24 final size:24
Alignment explanation
Indices: 31363974--31364024 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
31363964 GTATCCAAAC
*
31363974 TTTCGGCTTTTCGGCATTTCAGCT
1 TTTCGGCATTTCGGCATTTCAGCT
* *
31363998 TTTCGGCATTTCGGTATTTCGGCT
1 TTTCGGCATTTCGGCATTTCAGCT
31364022 TTT
1 TTT
31364025 GCCAATACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.08, C:0.22, G:0.22, T:0.49
Consensus pattern (24 bp):
TTTCGGCATTTCGGCATTTCAGCT
Found at i:31368212 original size:28 final size:28
Alignment explanation
Indices: 31368180--31368294 Score: 133
Period size: 29 Copynumber: 4.0 Consensus size: 28
31368170 TACATGTATC
* *
31368180 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
31368208 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCC-AATCACAT-TCATA
* *
31368237 TGGCCCATTAGGCTCAAATCACATTTATA
1 TGGCCCATTAGGC-CCAATCACATTCATA
* *
31368266 TGTCCCATTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
31368294 T
1 T
31368295 TCATGCTCAC
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
28 28 0.38
29 44 0.59
30 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:31368237 original size:29 final size:29
Alignment explanation
Indices: 31368171--31368281 Score: 136
Period size: 29 Copynumber: 3.9 Consensus size: 29
31368161 AATTTCACAT
* *
31368171 ACATGTATCTGGCCCATTAAGCCC-AATC
1 ACATGTATATGGCCCATTAGGCCCAAATC
*
31368199 ATAT-TCATATGGCCCATTAGGCCCAAATC
1 ACATGT-ATATGGCCCATTAGGCCCAAATC
* *
31368228 ACCTGTATATGGCCCATTAGGCTCAAATC
1 ACATGTATATGGCCCATTAGGCCCAAATC
* *
31368257 ACATTTATATGTCCCATTAGGCCCA
1 ACATGTATATGGCCCATTAGGCCCA
31368282 GTCACATTCA
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
27 1 0.01
28 19 0.27
29 49 0.70
30 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (29 bp):
ACATGTATATGGCCCATTAGGCCCAAATC
Found at i:31368532 original size:8 final size:8
Alignment explanation
Indices: 31368511--31368555 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
31368501 AAACTTTTGA
*
31368511 CTTTTCAG
1 CTTTTCGG
*
31368519 CATTTCGG
1 CTTTTCGG
31368527 CTTTTCGG
1 CTTTTCGG
*
31368535 CTTTTTGG
1 CTTTTCGG
*
31368543 CATTTCGG
1 CTTTTCGG
31368551 CTTTT
1 CTTTT
31368556 ACCGATACAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.07, C:0.22, G:0.20, T:0.51
Consensus pattern (8 bp):
CTTTTCGG
Found at i:31375077 original size:42 final size:42
Alignment explanation
Indices: 31374967--31375114 Score: 174
Period size: 43 Copynumber: 3.5 Consensus size: 42
31374957 CGATATGTGT
*
31374967 TTTCATGTAAGACCATGTCTAGGACGTTGGCATCG-ATTATGA
1 TTTCATGTAAGACCATGTCTAGGACATTGGCATCGTATT-TGA
31375009 TTT-ATGTGTAAGACCATGTCTAGGACATTGGCATCGTATTTGA
1 TTTCA--TGTAAGACCATGTCTAGGACATTGGCATCGTATTTGA
* * * *
31375052 TTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGA
1 TTTCATGTAAGACCATGTCTAGGACATTGGCATCG-TATTTGA
* * *
31375095 TTACATGTAAAACCACGTCT
1 TTTCATGTAAGACCATGTCT
31375115 GGGATGTTGT
Statistics
Matches: 91, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
41 1 0.01
42 30 0.33
43 57 0.63
44 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.34
Consensus pattern (42 bp):
TTTCATGTAAGACCATGTCTAGGACATTGGCATCGTATTTGA
Found at i:31382362 original size:50 final size:50
Alignment explanation
Indices: 31382244--31382489 Score: 262
Period size: 49 Copynumber: 4.9 Consensus size: 50
31382234 TAGCCAAAGC
* * ** * * * *
31382244 TATCCGGTACACATAGTAGCTTTTACTTAGAACTATACATGCGACC-AAT
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * *
31382293 TATCCGGTACATGTAGTAGCCTGTACTTAGTACTACACACGTGACCTAAC
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * * * *
31382343 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-T
* ** * * * *
31382394 TATCGGGTATGCATAGTAGCTTGCACTTAGTACTACACATGCGACC-AAT
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
31382443 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
31382490 CACAATAGAT
Statistics
Matches: 160, Mismatches: 34, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
49 78 0.49
50 46 0.29
51 36 0.22
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (50 bp):
TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
Found at i:31382476 original size:100 final size:101
Alignment explanation
Indices: 31382306--31382486 Score: 283
Period size: 100 Copynumber: 1.8 Consensus size: 101
31382296 CCGGTACATG
* * *
31382306 TAGTAGCCTGTACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCCGATACACGTAGTAGCCTGCACTT
31382371 AGTACTACACACGTGATCGAAGTTATCGGGTATGCA
66 AGTACTACACACGTGATCGAAGTTATCGGGTATGCA
* * ** *
31382407 TAGTAGCTTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCCGATACACGTAGTAGCCTGCACTT
31382471 AGTACTACACACGTGA
66 AGTACTACACACGTGA
31382487 CCTCACAATA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 43 0.60
101 29 0.40
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCCGATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCGAAGTTATCGGGTATGCA
Found at i:31383603 original size:13 final size:13
Alignment explanation
Indices: 31383587--31383613 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31383577 TCGAACGAAA
31383587 TTTTCACGAAATC
1 TTTTCACGAAATC
31383600 TTTTCACGAAATC
1 TTTTCACGAAATC
31383613 T
1 T
31383614 AGACCATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (13 bp):
TTTTCACGAAATC
Found at i:31387603 original size:50 final size:50
Alignment explanation
Indices: 31387485--31387730 Score: 262
Period size: 49 Copynumber: 4.9 Consensus size: 50
31387475 TAGCCAAAGC
* * ** * * * *
31387485 TATCCGGTACACATAGTAGCTTTTACTTAGAACTATACATGCGACC-AAT
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * *
31387534 TATCCGGTACATGTAGTAGCCTGTACTTAGTACTACACACGTGACCTAAC
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * * * *
31387584 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-T
* ** * * * *
31387635 TATCGGGTATGCATAGTAGCTTGCACTTAGTACTACACATGCGACC-AAT
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
31387684 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
31387731 CACAATAGAT
Statistics
Matches: 160, Mismatches: 34, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
49 78 0.49
50 46 0.29
51 36 0.22
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (50 bp):
TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
Found at i:31387717 original size:100 final size:101
Alignment explanation
Indices: 31387547--31387727 Score: 283
Period size: 100 Copynumber: 1.8 Consensus size: 101
31387537 CCGGTACATG
* * *
31387547 TAGTAGCCTGTACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCCGATACACGTAGTAGCCTGCACTT
31387612 AGTACTACACACGTGATCGAAGTTATCGGGTATGCA
66 AGTACTACACACGTGATCGAAGTTATCGGGTATGCA
* * ** *
31387648 TAGTAGCTTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCCGATACACGTAGTAGCCTGCACTT
31387712 AGTACTACACACGTGA
66 AGTACTACACACGTGA
31387728 CCTCACAATA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 43 0.60
101 29 0.40
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCCGATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCGAAGTTATCGGGTATGCA
Found at i:31391389 original size:38 final size:38
Alignment explanation
Indices: 31391338--31391439 Score: 186
Period size: 38 Copynumber: 2.7 Consensus size: 38
31391328 TTAAGCTCGA
*
31391338 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
31391376 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
*
31391414 ATGTAATACCAGCACGAAGCCTGCGG
1 ATATAATACCAGCACGAAGCCTGCGG
31391440 ACCTTTAAGC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.19
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
Found at i:31394931 original size:3 final size:3
Alignment explanation
Indices: 31394923--31394951 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
31394913 ATTTGATCTT
31394923 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
31394952 TAAATGATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:31405235 original size:40 final size:40
Alignment explanation
Indices: 31405205--31405429 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
31405195 GCTACTCGTT
* *
31405205 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
31405245 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
31405285 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
31405325 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
31405364 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
31405405 CAAA-GCCTTCGGGACTTACCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
31405430 CATCATTCGA
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 117 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:31405389 original size:119 final size:120
Alignment explanation
Indices: 31405207--31405429 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
31405197 TACTCGTTCA
*
31405207 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
31405272 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
31405327 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
31405389 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTACCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
31405430 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:31406622 original size:56 final size:56
Alignment explanation
Indices: 31406555--31406674 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
31406545 TATTAGTTTA
31406555 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
* *
31406611 TTGCCCATGCTTTTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
31406667 TTGCCCAT
1 TTGCCCAT
31406675 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:31413114 original size:40 final size:40
Alignment explanation
Indices: 31413077--31413301 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
31413067 GCTACTCGTT
* *
31413077 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
31413117 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
31413157 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
31413197 CCAATGCCTTCAGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
31413236 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
31413277 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
31413302 CATCATTCGA
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 117 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:31413261 original size:119 final size:120
Alignment explanation
Indices: 31413079--31413301 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
31413069 TACTCGTTCA
* *
31413079 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCAGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
31413144 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
31413199 AATGCCTTCAGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCAGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
31413261 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
31413302 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.74
120 19 0.21
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCAGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:31414475 original size:56 final size:56
Alignment explanation
Indices: 31414405--31414524 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
31414395 TATTAGTTTA
*
31414405 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGATTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
31414461 TTGCCCATGATTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGATTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
31414517 TTGCCCAT
1 TTGCCCAT
31414525 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGATTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:31417924 original size:28 final size:29
Alignment explanation
Indices: 31417863--31417931 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 29
31417853 TTCGGGTCAG
* *
31417863 ATGGGCCATATAAATGTGATTTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCTA
31417892 ATGGGCCATATGAATGAGA-TTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCTA
* *
31417920 GTGGGCAATATG
1 ATGGGCCATATG
31417932 CATGTACGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 19 0.53
29 17 0.47
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.28
Consensus pattern (29 bp):
ATGGGCCATATGAATGAGATTTGGGCCTA
Found at i:31418309 original size:27 final size:27
Alignment explanation
Indices: 31418256--31418327 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
31418246 CTAATTTTTG
*
31418256 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCGAAATACCCTCGACCTGTA
** * *
31418283 CGATTACCGAAATACCCTCTACTTGTA
1 AAATTACCGAAATACCCTCGACCTGTA
* *
31418310 AAATTATCGAAATGCCCT
1 AAATTACCGAAATACCCT
31418328 TGAGGGCGAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGACCTGTA
Found at i:31425080 original size:20 final size:19
Alignment explanation
Indices: 31425057--31425115 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
31425047 TAAATTCTAC
31425057 AAGATAAATACAAATAAATA
1 AAGATAAATA-AAATAAATA
* * *
31425077 AAGATAATTAAAGATGATTA
1 AAGATAAATAAA-ATAAATA
31425097 AAGATAAATGAAAATAAAT
1 AAGATAAAT-AAAATAAAT
31425116 CTTAAAATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
19 2 0.06
20 26 0.84
21 3 0.10
ACGTcount: A:0.64, C:0.02, G:0.10, T:0.24
Consensus pattern (19 bp):
AAGATAAATAAAATAAATA
Found at i:31430352 original size:39 final size:40
Alignment explanation
Indices: 31430275--31430421 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
31430265 TAGCTCCTCG
* * *
31430275 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
31430315 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
31430354 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
31430394 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
31430422 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:31430432 original size:80 final size:80
Alignment explanation
Indices: 31430321--31430501 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
31430311 CTCATTCAAT
* * *
31430321 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
31430384 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
31430400 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
31430464 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
31430481 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
31430502 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:31430461 original size:40 final size:40
Alignment explanation
Indices: 31430318--31430501 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
31430308 TAACTCATTC
* *
31430318 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
31430358 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
31430398 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
31430438 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
31430479 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
31430502 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:31438181 original size:39 final size:40
Alignment explanation
Indices: 31438104--31438210 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
31438094 TAGCTCCTCG
* * *
31438104 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
31438144 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
**
31438183 CACGAATGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
31438211 ATTAGTATCT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 25 0.43
40 33 0.57
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:31438199 original size:40 final size:39
Alignment explanation
Indices: 31438147--31438277 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
31438137 TAACTCATTC
* *
31438147 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAAAACTCGCACA
* *
31438187 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTA-AAACTCGCACA
* * *
31438227 AAGGCCTTCGGGACTTGACCCAGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAA-AACTCGCACA
*
31438267 AATACCTTCGG
1 AATGCCTTCGG
31438278 ATCTTAGTCC
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGAATTAAAACTCGCACA
Found at i:31438217 original size:79 final size:80
Alignment explanation
Indices: 31438110--31438323 Score: 195
Period size: 80 Copynumber: 2.7 Consensus size: 80
31438100 CTCGTTCAAG
* * ** * * *
31438110 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATTT
1 TGCCTTCGGGACATAACCCGGATATAGTAACTCACACAAAGGCCTTCGGGACTTAACCCAGA-AT
*
31438174 TAA-AACTCGCACGAA
65 TAATAACTCGCACAAA
* * * *
31438189 TGCCTTCGGGACTTAACCCGGA-ATTAGTATCTCGCACAAAGGCCTTCGGGACTTGACCCAGAAT
1 TGCCTTCGGGACATAACCCGGATA-TAGTAACTCACACAAAGGCCTTCGGGACTTAACCCAGAAT
31438253 TAATAACTCGCACAAA
65 TAATAACTCGCACAAA
* * ** * *
31438269 TACCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTA
1 TGCCTTCGGGA-CATAACCCGGATATAGTAACTCA-CACAAAGGCCTTCGGGACTTA
31438324 GCCCGGACAG
Statistics
Matches: 109, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
78 1 0.01
79 35 0.32
80 66 0.61
81 7 0.06
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGATATAGTAACTCACACAAAGGCCTTCGGGACTTAACCCAGAATT
AATAACTCGCACAAA
Found at i:31438290 original size:80 final size:80
Alignment explanation
Indices: 31438150--31438323 Score: 196
Period size: 80 Copynumber: 2.2 Consensus size: 80
31438140 CTCATTCAAT
* * * *
31438150 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGGA-ATT
1 GCCTTCGGGACTTAACCCAGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATA-T
*
31438214 AGT-A-TCTCGCACAAA
65 AGTCACT-TAGCACAAA
* **
31438229 GGCCTTCGGGACTTGACCCAGA-ATTAATAACTCGCACAAATACCTTC-GGATCTTAGTCCGGAT
1 -GCCTTCGGGACTTAACCCAGATATTAA-AACTCGCACAAATACCTTCGGGA-CTTAACCCGGAT
31438292 ATAGTCACTTAGCACAAA
63 ATAGTCACTTAGCACAAA
31438310 GCCTTCGGGACTTA
1 GCCTTCGGGACTTA
31438324 GCCCGGACAG
Statistics
Matches: 80, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
79 7 0.09
80 62 0.77
81 10 0.12
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCAGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:31445352 original size:41 final size:41
Alignment explanation
Indices: 31445326--31445587 Score: 454
Period size: 41 Copynumber: 6.4 Consensus size: 41
31445316 GCGTTTTACC
*
31445326 AAAAGCGCCGCTAAAAGACAGAGCTTTAGCGGCGCTTTTGGT
1 AAAA-CGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
31445368 AAAACGCCGCT-AAAGACAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
* *
31445408 AAAACGCCGCTAAAAGACAGAGTAGTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
*
31445449 AAAACGCCGCTAAAAGACAGAGCAGTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
*
31445490 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGTTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
*
31445531 AAAACGCCGCTAAAATACAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
31445572 AAAACGCCGCTAAAAG
1 AAAACGCCGCTAAAAG
31445588 TCATATAACT
Statistics
Matches: 210, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
40 39 0.19
41 167 0.80
42 4 0.02
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
Found at i:31446230 original size:24 final size:24
Alignment explanation
Indices: 31446203--31446251 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
31446193 CGTATATTTA
*
31446203 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
31446227 TTAAAAGTCTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
31446251 T
1 T
31446252 GTTATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAAAAGTCTATATAAAAATTAAT
Found at i:31446557 original size:15 final size:14
Alignment explanation
Indices: 31446538--31446586 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
31446528 ACTATTTTAA
31446538 GGTTTATGGATTAT
1 GGTTTATGGATTAT
31446552 GTGTTTATGGATTAT
1 G-GTTTATGGATTAT
** *
31446567 GGTTTACAGTTTAT
1 GGTTTATGGATTAT
31446581 GGTTTA
1 GGTTTA
31446587 AAGGTTGGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
14 17 0.55
15 14 0.45
ACGTcount: A:0.20, C:0.02, G:0.27, T:0.51
Consensus pattern (14 bp):
GGTTTATGGATTAT
Found at i:31446605 original size:7 final size:7
Alignment explanation
Indices: 31446533--31446586 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
31446523 GAGTTACTAT
*
31446533 TTTAAGG
1 TTTATGG
31446540 TTTATGG
1 TTTATGG
*
31446547 ATTATGTG
1 TTTATG-G
31446555 TTTATGG
1 TTTATGG
*
31446562 ATTATGG
1 TTTATGG
**
31446569 TTTACAG
1 TTTATGG
31446576 TTTATGG
1 TTTATGG
31446583 TTTA
1 TTTA
31446587 AAGGTTGGGG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 31 0.84
8 6 0.16
ACGTcount: A:0.22, C:0.02, G:0.24, T:0.52
Consensus pattern (7 bp):
TTTATGG
Found at i:31446628 original size:14 final size:14
Alignment explanation
Indices: 31446605--31446649 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
31446595 GGTTTAAGGT
* *
31446605 TTAGGTGTTAGGGG
1 TTAGGGGTTATGGG
31446619 TTAGGGGTTATGGG
1 TTAGGGGTTATGGG
31446633 TTAGGGGTTATGGG
1 TTAGGGGTTATGGG
31446647 TTA
1 TTA
31446650 TGGATTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.16, C:0.00, G:0.47, T:0.38
Consensus pattern (14 bp):
TTAGGGGTTATGGG
Found at i:31446637 original size:21 final size:21
Alignment explanation
Indices: 31446611--31446652 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
31446601 AGGTTTAGGT
31446611 GTTAGGGGTTAGGGGTTATGG
1 GTTAGGGGTTAGGGGTTATGG
*
31446632 GTTAGGGGTTATGGGTTATGG
1 GTTAGGGGTTAGGGGTTATGG
31446653 ATTTAAGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.00, G:0.50, T:0.36
Consensus pattern (21 bp):
GTTAGGGGTTAGGGGTTATGG
Found at i:31446826 original size:14 final size:14
Alignment explanation
Indices: 31446807--31446873 Score: 80
Period size: 14 Copynumber: 4.7 Consensus size: 14
31446797 GTTTGCAGGT
*
31446807 AAAATGTTTTCTGG
1 AAAATGATTTCTGG
*
31446821 AAAATGATTTATGG
1 AAAATGATTTCTGG
* *
31446835 AAAATAATTTCTTGA
1 AAAATGATTTC-TGG
*
31446850 AAAATGATTTTTGG
1 AAAATGATTTCTGG
31446864 AAAATGATTT
1 AAAATGATTT
31446874 ACTTTTCTGG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
14 33 0.75
15 11 0.25
ACGTcount: A:0.40, C:0.03, G:0.16, T:0.40
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:31447351 original size:15 final size:17
Alignment explanation
Indices: 31447328--31447372 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
31447318 TAAAGCTTTT
*
31447328 ATATTTAAAAATATTT-
1 ATATATAAAAATATTTG
*
31447344 A-ATCTAAAAA-ATTTG
1 ATATATAAAAATATTTG
31447359 ATATATAAAAATAT
1 ATATATAAAAATAT
31447373 ATAAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 4 0.17
15 9 0.38
16 9 0.38
17 2 0.08
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
ATATATAAAAATATTTG
Found at i:31450406 original size:15 final size:16
Alignment explanation
Indices: 31450386--31450416 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
31450376 GTTTTTATCT
31450386 TATATATGAT-TAAAA
1 TATATATGATCTAAAA
31450401 TATATATGATCTAAAA
1 TATATATGATCTAAAA
31450417 GCAAGAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATATGATCTAAAA
Found at i:31451755 original size:22 final size:23
Alignment explanation
Indices: 31451713--31451755 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
31451703 TTTCAAAAAT
*
31451713 TAAACATAATATAATATTTAACA
1 TAAAAATAATATAATATTTAACA
*
31451736 TAAAAATAA-ATATTATTTAA
1 TAAAAATAATATAATATTTAA
31451756 TTAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAAAATAATATAATATTTAACA
Found at i:31451848 original size:43 final size:43
Alignment explanation
Indices: 31451790--31452060 Score: 319
Period size: 43 Copynumber: 6.3 Consensus size: 43
31451780 GATCATTATT
* * * * *
31451790 TTTAGCGGCGTTTGTGAGAAAAGTGCCGCTAAAGGTTATGATT
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTC
*
31451833 TTTAGCGGCGTTTGTGAAAAATGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTC
* * * *
31451876 TTTAGCGGCGTTT-TCTAAAAAAGCGACGCTAAAGGTTATCGTC
1 TTTAGCGGCGTTTGT-GAAAAAAGCGCCGCTAAAGGTCATGGTC
** *
31451919 TTTAGCGGCGTTTGCAAAAAAAGCGCCGCTAAAAGTCATGGTC
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTC
* * * * * * ** * *
31451962 TTTAGCGACGTCTGCGAGAAAAGTGCCACTAAAACTCTTGGTT
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTC
31452005 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTC
31452048 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
31452061 TTCGAAAAGC
Statistics
Matches: 190, Mismatches: 36, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
42 1 0.01
43 189 0.99
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:31456866 original size:53 final size:54
Alignment explanation
Indices: 31456753--31456986 Score: 216
Period size: 55 Copynumber: 4.4 Consensus size: 54
31456743 CATTAATTGT
* * *
31456753 CATGGTCTTACGTGGTATCC-TT--TTA--AAACTTACCATTGCCATGTCTTGA
1 CATGGTCTTACATGGTATCCTTTCCTTATGAAACTTACCAATGCCATGCCTTGA
* * *
31456802 CATGGTCTTACATGGTATCCTTTCCATATG-AACTCACCAATGCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTTCCTTATGAAACTTACCAATGCCATGCCTTGA
* * * * *
31456855 CATGGTTTTACATGGGA-CCTTTTCCTTATAGTAACTTATCAATGCCATGTCTTGA
1 CATGGTCTTACATGGTATCC-TTTCCTTAT-GAAACTTACCAATGCCATGCCTTGA
* * * *
31456910 CATGGTCTTACATGATTTCCTTGCCTTA-GAAATCTTACCAATTGCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTTCCTTATGAAA-CTTACCAA-TGCCATGCCTTGA
*
31456965 CATAGTCTTA-ATTGGTATCCTT
1 CATGGTCTTACA-TGGTATCCTT
31456987 AAACCTTAAT
Statistics
Matches: 148, Mismatches: 25, Indels: 18
0.77 0.13 0.09
Matches are distributed among these distances:
49 19 0.13
50 2 0.01
52 4 0.03
53 45 0.30
54 9 0.06
55 67 0.45
56 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.38
Consensus pattern (54 bp):
CATGGTCTTACATGGTATCCTTTCCTTATGAAACTTACCAATGCCATGCCTTGA
Found at i:31462528 original size:16 final size:16
Alignment explanation
Indices: 31462509--31462539 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31462499 CTTCTTCACT
31462509 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
31462525 TACTTACTTACTTAA
1 TACTCACTTACTTAA
31462540 TCAAGTTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:31462921 original size:55 final size:53
Alignment explanation
Indices: 31462778--31462985 Score: 231
Period size: 55 Copynumber: 3.8 Consensus size: 53
31462768 ATCCTTTTAA
* *
31462778 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAG
* * * *
31462831 AACTCACTAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG
* * * * *
31462885 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAG
*
31462939 AACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
31462986 AAACCCTAAT
Statistics
Matches: 128, Mismatches: 20, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
52 2 0.02
53 45 0.35
54 9 0.07
55 70 0.55
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG
Found at i:31468054 original size:30 final size:30
Alignment explanation
Indices: 31468010--31468081 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
31468000 ATTGCATATT
* *
31468010 ATTT-TATGTATATATTTTCTTTTAAATCA
1 ATTTATATTTATATATTCTCTTTTAAATCA
*
31468039 ATTTATATTTATATATTCTCTTTTAAATCT
1 ATTTATATTTATATATTCTCTTTTAAATCA
*
31468069 ATATATAATTTAT
1 ATTTAT-ATTTAT
31468082 CTCTTTTAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 4 0.11
30 27 0.73
31 6 0.16
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.58
Consensus pattern (30 bp):
ATTTATATTTATATATTCTCTTTTAAATCA
Found at i:31471419 original size:133 final size:133
Alignment explanation
Indices: 31471180--31471457 Score: 376
Period size: 133 Copynumber: 2.1 Consensus size: 133
31471170 CGAAAGAGAC
* * * *
31471180 TGAAGATTGTAGATATTATCTCCCTAAGCAGTAGTGGAGCATATCGAAGATGGTAAATCTTATTT
1 TGAAGATTGTAGATATTATCTCCCTAAGCAGTACTGGAGCAGATCGAAGATGGCAAATCTTATCT
31471245 TCCCGAGGTAGCAGGGGAGAAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAATA
66 TCCCGAGGTAGCAGGGGAGAAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAATA
31471310 GGT
131 GGT
* * * *
31471313 TGAAGTTTGTAGATCTTATCTCCCTAAGCAGTACTGGAGCGGATCGAAGATGGCGAATCTTATCT
1 TGAAGATTGTAGATATTATCTCCCTAAGCAGTACTGGAGCAGATCGAAGATGGCAAATCTTATCT
* * * * * * * * * **
31471378 TGCCGAGGTAGCAGGGGAGTAGATTTTAGCCACTAGTCTTATTTCTTTGAGGTAGCAAGGGAGCA
66 TCCCGAGGTAGCAGGGGAGAAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAATA
*
31471443 GGC
131 GGT
31471446 TGAAGATTGTAG
1 TGAAGATTGTAG
31471458 CCTTATCTTC
Statistics
Matches: 124, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
133 124 1.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (133 bp):
TGAAGATTGTAGATATTATCTCCCTAAGCAGTACTGGAGCAGATCGAAGATGGCAAATCTTATCT
TCCCGAGGTAGCAGGGGAGAAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAATA
GGT
Found at i:31471463 original size:44 final size:44
Alignment explanation
Indices: 31471415--31471501 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
31471405 AGCCACTAGT
* * *
31471415 CTTAT-TTCTTTGAGGTAGC-AAGGGAGCAGGCTGAAGATTGTAGC
1 CTTATCTTC-TTGAGGTA-CAAAGGGAACAGACCGAAGATTGTAGC
*
31471459 CTTATCTTCTTGAGGTACAAAGGGAACATACCGAAGATTGTAG
1 CTTATCTTCTTGAGGTACAAAGGGAACAGACCGAAGATTGTAG
31471502 ATCTGATCTC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
43 1 0.03
44 33 0.89
45 3 0.08
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (44 bp):
CTTATCTTCTTGAGGTACAAAGGGAACAGACCGAAGATTGTAGC
Found at i:31473424 original size:30 final size:29
Alignment explanation
Indices: 31473380--31473436 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
31473370 ATTGCATATT
31473380 ATTTTATGTATATATTTTCTTTTAAATCA
1 ATTTTATGTATATATTTTCTTTTAAATCA
*
31473409 ATTTATATTTATATATTTTCTTTTAAAT
1 ATTT-TATGTATATATTTTCTTTTAAAT
31473437 TTATATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (29 bp):
ATTTTATGTATATATTTTCTTTTAAATCA
Found at i:31475146 original size:34 final size:34
Alignment explanation
Indices: 31475067--31475163 Score: 106
Period size: 34 Copynumber: 2.8 Consensus size: 34
31475057 CCGTTAGTTC
* *
31475067 CAGTTAGGGCCTTAGCCCATTTTTCAGTAACAGTAT
1 CAGTTTGGGCCTTAGCCCA--TTTCAGTAACAGTAG
* * *
31475103 CAGTCTGGGCCTGAGCCCATTTCAGTAATAG-AGG
1 CAGTTTGGGCCTTAGCCCATTTCAGTAACAGTA-G
*
31475137 CAGTTTGGGCCTTAACCCATTTCAGTA
1 CAGTTTGGGCCTTAGCCCATTTCAGTA
31475164 CAATATGCAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
33 1 0.02
34 35 0.67
36 16 0.31
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (34 bp):
CAGTTTGGGCCTTAGCCCATTTCAGTAACAGTAG
Found at i:31499815 original size:22 final size:23
Alignment explanation
Indices: 31499751--31499859 Score: 114
Period size: 23 Copynumber: 4.8 Consensus size: 23
31499741 CAGCTCGTAT
*
31499751 GAGCTTACTGATTCAGCTCATAA
1 GAGCTTACTGATTCAGCTCATTA
* *
31499774 GAGCTTACTGTTTCATCTCATTA
1 GAGCTTACTGATTCAGCTCATTA
* *
31499797 GAGCTTA-TCATTCAGCTCAATA
1 GAGCTTACTGATTCAGCTCATTA
* * * *
31499819 GAGCTTACCGTTTCAACTCAATA
1 GAGCTTACTGATTCAGCTCATTA
*
31499842 GAGTTTACTG-TTCAGCTC
1 GAGCTTACTGATTCAGCTC
31499860 GAAGGAGCTT
Statistics
Matches: 71, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
22 25 0.35
23 46 0.65
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.35
Consensus pattern (23 bp):
GAGCTTACTGATTCAGCTCATTA
Found at i:31499822 original size:45 final size:46
Alignment explanation
Indices: 31499751--31499873 Score: 137
Period size: 45 Copynumber: 2.7 Consensus size: 46
31499741 CAGCTCGTAT
* * * *
31499751 GAGCTTACTGATTCAGCTCATAAGAGCTTACTGTTTCATCTCATTA
1 GAGCTTACTCATTCAGCTCATAAGAGCTTACCGTTTCAACTCAATA
31499797 GAGCTTA-TCATTCAGCTCA-ATAGAGCTTACCGTTTCAACTCAATA
1 GAGCTTACTCATTCAGCTCATA-AGAGCTTACCGTTTCAACTCAATA
* * *
31499842 GAGTTTACT-GTTCAGCTCGA-AGGAGCTTACCG
1 GAGCTTACTCATTCAGCTC-ATAAGAGCTTACCG
31499874 ACCATGACTC
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
44 1 0.01
45 56 0.84
46 10 0.15
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.33
Consensus pattern (46 bp):
GAGCTTACTCATTCAGCTCATAAGAGCTTACCGTTTCAACTCAATA
Found at i:31505533 original size:18 final size:18
Alignment explanation
Indices: 31505512--31505570 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
31505502 AAAGTACATA
*
31505512 AAAAAGATAAATAAAGAT
1 AAAAAGATAAATAAAAAT
*
31505530 AAAAGGGA-AAATAAAAAT
1 AAAA-AGATAAATAAAAAT
*
31505548 AAAAA-ATAAAAAAAAAT
1 AAAAAGATAAATAAAAAT
*
31505565 GAAAAG
1 AAAAAG
31505571 TATTTAAACA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
16 1 0.03
17 13 0.39
18 17 0.52
19 2 0.06
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (18 bp):
AAAAAGATAAATAAAAAT
Found at i:31507106 original size:22 final size:23
Alignment explanation
Indices: 31507079--31507139 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
31507069 AAGACAGAAA
31507079 AATAATAA-GAATAAAAAATATT
1 AATAATAATGAATAAAAAATATT
* *
31507101 AATAATAATGAA-CAATAATATT
1 AATAATAATGAATAAAAAATATT
31507123 AATAATAATGTAATAAA
1 AATAATAATG-AATAAA
31507140 TGAGGAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 26 0.79
23 5 0.15
24 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (23 bp):
AATAATAATGAATAAAAAATATT
Found at i:31528616 original size:38 final size:38
Alignment explanation
Indices: 31528565--31528679 Score: 158
Period size: 38 Copynumber: 3.0 Consensus size: 38
31528555 AGCACTCGAT
31528565 ATATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
* * *
31528603 ATATATCCGGGTTAAATCCCGTAGGCTTCGTGTTGGTA
1 ATATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
* * *
31528641 TTATATCCGAGCTTAAAGTCCCGCAGGCTTTGTGCTGGT
1 ATATATCCG-GGTT-AAGTCCCGCAGGCTTCGTGCTGGT
31528680 GACTGGATTT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
38 43 0.65
39 3 0.05
40 20 0.30
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.32
Consensus pattern (38 bp):
ATATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
Found at i:31540082 original size:46 final size:46
Alignment explanation
Indices: 31540032--31540204 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
31540022 TGGTTGAGCA
31540032 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
31540078 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
31540123 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
31540171 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
31540205 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:31540188 original size:93 final size:93
Alignment explanation
Indices: 31540029--31540199 Score: 324
Period size: 93 Copynumber: 1.8 Consensus size: 93
31540019 GGATGGTTGA
*
31540029 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
31540094 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
31540122 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
31540187 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
31540200 ACTTAGGGGC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:31547672 original size:46 final size:45
Alignment explanation
Indices: 31547622--31547794 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
31547612 TGGTTGAGCA
31547622 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * * *
31547668 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTGGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-TGCGAAG
* *
31547715 TCCAAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
31547761 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
31547795 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
44 4 0.04
45 4 0.04
46 60 0.58
47 30 0.29
48 2 0.02
49 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:31547778 original size:93 final size:93
Alignment explanation
Indices: 31547619--31547789 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
31547609 GGATGGTTGA
* *
31547619 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
31547684 TGAGTCCGAGTTCGTGAAATGTAACTGG
66 TGAGTCCGAGTTCGTGAAATGTAACTGG
* *
31547712 GCATCCAAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
31547776 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
31547790 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTGG
Found at i:31555124 original size:22 final size:24
Alignment explanation
Indices: 31555099--31555151 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
31555089 TAACTCATTG
31555099 GAGCTTACC-ATTCAGCTCAAT-A
1 GAGCTTACCGATTCAGCTCAATCA
*
31555121 GAGCTTACCGTTTCAGCTCAATCA
1 GAGCTTACCGATTCAGCTCAATCA
31555145 -AGCTTAC
1 GAGCTTAC
31555152 TGTTCATCTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 9 0.32
23 18 0.64
24 1 0.04
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (24 bp):
GAGCTTACCGATTCAGCTCAATCA
Found at i:31566661 original size:18 final size:18
Alignment explanation
Indices: 31566635--31566768 Score: 117
Period size: 18 Copynumber: 7.4 Consensus size: 18
31566625 AGTAATGATC
*
31566635 AATTGTTCAGTAACAGTT
1 AATTATTCAGTAACAGTT
* *
31566653 GATTATTCAGTAACAGTC
1 AATTATTCAGTAACAGTT
* * *
31566671 ATTTATTAAGTAACAGTC
1 AATTATTCAGTAACAGTT
* * * *
31566689 AATTATTTAGTAATAATC
1 AATTATTCAGTAACAGTT
*
31566707 AGTTATTCAGTAACAGTCT
1 AATTATTCAGTAACAGT-T
* *
31566726 -TTTATTCAGTGACAGTT
1 AATTATTCAGTAACAGTT
* *
31566743 AATTATTCAGTCACAGTC
1 AATTATTCAGTAACAGTT
31566761 AATTATTC
1 AATTATTC
31566769 GGTACCTTTA
Statistics
Matches: 94, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
17 1 0.01
18 93 0.99
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (18 bp):
AATTATTCAGTAACAGTT
Found at i:31566661 original size:36 final size:36
Alignment explanation
Indices: 31566621--31566768 Score: 143
Period size: 36 Copynumber: 4.1 Consensus size: 36
31566611 TATCAATATC
* * **
31566621 ATTCAGTAATGATCAATTGTTCAGTAACAGTTGATT
1 ATTCAGTAATAATCAATTATTCAGTAACAGTCAATT
* * * *
31566657 ATTCAGTAACAGTCATTTATTAAGTAACAGTCAATT
1 ATTCAGTAATAATCAATTATTCAGTAACAGTCAATT
* * **
31566693 ATTTAGTAATAATCAGTTATTCAGTAACAGTCTTTT
1 ATTCAGTAATAATCAATTATTCAGTAACAGTCAATT
* * * * *
31566729 ATTCAGTGACAGTTAATTATTCAGTCACAGTCAATT
1 ATTCAGTAATAATCAATTATTCAGTAACAGTCAATT
31566765 ATTC
1 ATTC
31566769 GGTACCTTTA
Statistics
Matches: 88, Mismatches: 24, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
36 88 1.00
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (36 bp):
ATTCAGTAATAATCAATTATTCAGTAACAGTCAATT
Found at i:31566701 original size:54 final size:54
Alignment explanation
Indices: 31566633--31566768 Score: 155
Period size: 54 Copynumber: 2.5 Consensus size: 54
31566623 TCAGTAATGA
* *
31566633 TCAATTGTTCAGTAACAGTTGATTATTCAGTAACAGTCATTTATTAAGTAACAG
1 TCAATTATTCAGTAACAGTTAATTATTCAGTAACAGTCATTTATTAAGTAACAG
* * * * * * * *
31566687 TCAATTATTTAGTAATAATCAGTTATTCAGTAACAGTCTTTTATTCAGTGACAG
1 TCAATTATTCAGTAACAGTTAATTATTCAGTAACAGTCATTTATTAAGTAACAG
* * *
31566741 TTAATTATTCAGTCACAGTCAATTATTC
1 TCAATTATTCAGTAACAGTTAATTATTC
31566769 GGTACCTTTA
Statistics
Matches: 66, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (54 bp):
TCAATTATTCAGTAACAGTTAATTATTCAGTAACAGTCATTTATTAAGTAACAG
Found at i:31566953 original size:12 final size:12
Alignment explanation
Indices: 31566936--31566960 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31566926 AGTGTCGAAT
31566936 CGATAACAGTAA
1 CGATAACAGTAA
31566948 CGATAACAGTAA
1 CGATAACAGTAA
31566960 C
1 C
31566961 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.20, G:0.16, T:0.16
Consensus pattern (12 bp):
CGATAACAGTAA
Found at i:31579517 original size:46 final size:46
Alignment explanation
Indices: 31579461--31579729 Score: 266
Period size: 46 Copynumber: 5.8 Consensus size: 46
31579451 TTGTTGAGCA
*
31579461 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* * * *
31579507 TCTGAACTCGTTGAGTTGAGTCCAAGTT--C-GA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--AGG
*
31579552 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* *
31579600 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--AGG
* * *
31579645 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* * *
31579693 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31579730 GCGGGTTACA
Statistics
Matches: 184, Mismatches: 21, Indels: 36
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.01
43 14 0.08
44 2 0.01
45 4 0.02
46 87 0.47
47 54 0.29
48 4 0.02
49 2 0.01
50 13 0.07
51 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
Found at i:31579575 original size:47 final size:47
Alignment explanation
Indices: 31579510--31579675 Score: 225
Period size: 47 Copynumber: 3.6 Consensus size: 47
31579500 GCAAATGTCT
*
31579510 GAACTCGTTGAGTTGAGTCCAAGTTCGAGAGATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCC
* * *
31579557 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCAA--ATG--TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCGA--GA--GATGTAACTAGGCATCC
31579603 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCC
31579650 GAACTCGTTGAGTTGAGTCCGAGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTC
31579676 ACCTATGGAT
Statistics
Matches: 103, Mismatches: 7, Indels: 18
0.80 0.05 0.14
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 30 0.29
47 55 0.53
48 3 0.03
50 6 0.06
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (47 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCC
Found at i:31579595 original size:93 final size:93
Alignment explanation
Indices: 31579458--31579722 Score: 467
Period size: 93 Copynumber: 2.8 Consensus size: 93
31579448 GGATTGTTGA
*
31579458 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
*
31579523 TGAGTCCAAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
31579551 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
31579616 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * * * *
31579644 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
31579709 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
31579723 CTTATGGGCG
Statistics
Matches: 165, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 165 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:31594369 original size:16 final size:16
Alignment explanation
Indices: 31594345--31594379 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
31594335 CGTTAGAGAA
* *
31594345 AAACCAAAATAAAAAT
1 AAACAAAAACAAAAAT
31594361 AAACAAAAACAAAAAT
1 AAACAAAAACAAAAAT
31594377 AAA
1 AAA
31594380 TTAAGATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.80, C:0.11, G:0.00, T:0.09
Consensus pattern (16 bp):
AAACAAAAACAAAAAT
Found at i:31607812 original size:12 final size:13
Alignment explanation
Indices: 31607786--31607818 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
31607776 GAGACTCAAT
31607786 AAAAA-AAAGAGA
1 AAAAAGAAAGAGA
31607798 AAAAAGAAAGA-A
1 AAAAAGAAAGAGA
31607810 AAAAAGAAA
1 AAAAAGAAA
31607819 AAAGAGAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAGAGA
Found at i:31609172 original size:176 final size:175
Alignment explanation
Indices: 31608876--31609855 Score: 1024
Period size: 180 Copynumber: 5.5 Consensus size: 175
31608866 GCGACATTGG
* * * * * * * *
31608876 TGAAGATTAAAGATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATCGAAAATGGTGAATCTTATC
1 TGAAGATTGAAGAT-TTATCTCCCT-AAATAGTAGCGGAGCAGATCGAAGATGGCGAATCTTATC
* * *
31608941 TCCATGTATTGGCAATGGAGCAAATTTTA-CCACCAGCCTTATCTCTCTAAGGTAGCAAGA-AGG
64 TCCATGTATTGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGA-G
*
31609004 CAGGTTGAAAAATGAGTCTTATCTTTCTGAGGTAGCAAGAAAGTAGAC
128 CAGGTTGAAAAATGAGTCTTATCTTTCTGAGGTAGCAAGGAAGTAGAC
* *
31609052 TGAAGATTGAAGATCTTATCTCCCTAAATAGTAGCAGAGCAGATCGAATATGGCGAATCTTATCT
1 TGAAGATTGAAGAT-TTATCTCCCTAAATAGTAGCGGAGCAGATCGAAGATGGCGAATCTTATCT
* *
31609117 CCATGTATCGGCAATGGAGCGGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCA
65 CCATGTATTGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCA
* ** * *
31609182 GGTTGAAAAAAGAGTCTTATCTACCTGAGGTAACAAGGAAGCAGAC
130 GGTTGAAAAATGAGTCTTATCTTTCTGAGGTAGCAAGGAAGTAGAC
* * * * * *
31609228 TGAGGATTGAAGATTTCATCTCCTCGAAGTTGCAGCGGAGCAGATCTTTGAAGATGGCTAATCTT
1 TGAAGATTGAAGATTT-ATCTCC-CTAAATAGTAGCGGAGCAGATC---GAAGATGGCGAATCTT
* * * *
31609293 ATCTCCATGTATTGGCAATGGGGCAGATCTAAGCCA-TCAGCCTTATCTCTCTAAGGTAGCAAGA
61 ATCTCCATGTATTGGCAATGGAGCAGATTTTAGCCACT-AGCCTTATCTCTCTGAGGTAGCAAGA
* * * * *
31609357 GAACAGGTTGAAGAATGAGTCTTATCCTTATGAGGTAGCAAGAAAGTAGAC
125 GAGCAGGTTGAAAAATGAGTCTTATCTTTCTGAGGTAGCAAGGAAGTAGAC
* *
31609408 TGAAGATTGAAGATTTTATCTCCCTAAACAGTAGCGGAGCAGATCGAAGATGGCAAATCTTATCT
1 TGAAGATTGAAGA-TTTATCTCCCTAAATAGTAGCGGAGCAGATCGAAGATGGCGAATCTTATCT
* * * * *
31609473 CCATGTATCGAG-AATGGAGCGGATTTTAGCCACTGGCCTTATCTCTCTGAGGTAGCAGGAAAGC
65 CCATGTATTG-GCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGC
* * *
31609537 AGGTTGAAAAATGAGTCTTATCTTCCTGAGGTAACAAGGAAGCAGAC
129 AGGTTGAAAAATGAGTCTTATCTTTCTGAGGTAGCAAGGAAGTAGAC
* * * * * * *
31609584 TCAGGATTGAAGATTTCATCTCCTCGAAGTTA-CAGCGGAGCAGATCTTTGAAGGTGGCTAATCT
1 TGAAGATTGAAGATTT-ATCTCC-CTAA-ATAGTAGCGGAGCAGATC---GAAGATGGCGAATCT
* * * *
31609648 TATCTCCATATATTGGCAAT-GAGACAGATCTGAGCCA-TCAGCCTTATCTCTTTGAGGTAGCAA
60 TATCTCCATGTATTGGCAATGGAG-CAGATTTTAGCCACT-AGCCTTATCTCTCTGAGGTAGCAA
* * * *
31609711 GAGAGCAGGTTGAAGAATGAGTCTTGTCTTTCTGAGGTAGAAAGGAGGTAGAC
123 GAGAGCAGGTTGAAAAATGAGTCTTATCTTTCTGAGGTAGCAAGGAAGTAGAC
* * * * * * * * *
31609764 TAAAGATTGTAGATTTATTTCCC-AAAGTAATTGTGGAGTAGATCG-AGAATAGTGAATCTTATC
1 TGAAGATTGAAGATTTATCTCCCTAAA-TAGTAGCGGAGCAGATCGAAG-ATGGCGAATCTTATC
* ****
31609827 TCCATATATCAATAATGGAGCAGATTTTA
64 TCCATGTATTGGCAATGGAGCAGATTTTA
31609856 ACCCAATCCT
Statistics
Matches: 669, Mismatches: 111, Indels: 49
0.81 0.13 0.06
Matches are distributed among these distances:
174 2 0.00
175 93 0.14
176 244 0.36
177 40 0.06
178 12 0.02
179 28 0.04
180 247 0.37
181 3 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (175 bp):
TGAAGATTGAAGATTTATCTCCCTAAATAGTAGCGGAGCAGATCGAAGATGGCGAATCTTATCTC
CATGTATTGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAG
GTTGAAAAATGAGTCTTATCTTTCTGAGGTAGCAAGGAAGTAGAC
Found at i:31609354 original size:180 final size:175
Alignment explanation
Indices: 31608876--31609749 Score: 992
Period size: 176 Copynumber: 4.9 Consensus size: 175
31608866 GCGACATTGG
* * * * * *
31608876 TGAAGATTAAAGATCTT-ATCTCCCTGAAGTTGCAGTGAAGCAGATCGAAAATGG-TGAATCTTA
1 TGAAGATTGAAGAT-TTCATCTCCC-GAAATAGCAGCGGAGCAGATCGAAGATGGCT-AATCTTA
* *
31608939 TCTCCATGTATTGGCAATGGAGCAAATTTTA-CCACCAGCCTTATCTCTCTAAGGTAGCAAGA-A
63 TCTCCATGTATTGGCAATGGAGCAGATTTTAGCCA-CAGCCTTATCTCTCTGAGGTAGCAAGAGA
* * *
31609002 GGCAGGTTGAAAAATGAGTCTTATCTTTCTGAGGTAGCAAGAAAGTAGAC
127 -GCAGGTTGAAAAATGAGTCTTATCTTCCTGAGGTAACAAGAAAGCAGAC
* * * * *
31609052 TGAAGATTGAAGATCTT-ATCTCCCTAAATAGTAGCAGAGCAGATCGAATATGGCGAATCTTATC
1 TGAAGATTGAAGAT-TTCATCTCCCGAAATAGCAGCGGAGCAGATCGAAGATGGCTAATCTTATC
* *
31609116 TCCATGTATCGGCAATGGAGCGGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGC
65 TCCATGTATTGGCAATGGAGCAGATTTTAGCCAC-AGCCTTATCTCTCTGAGGTAGCAAGAGAGC
* * *
31609181 AGGTTGAAAAAAGAGTCTTATCTACCTGAGGTAACAAGGAAGCAGAC
129 AGGTTGAAAAATGAGTCTTATCTTCCTGAGGTAACAAGAAAGCAGAC
* * *
31609228 TGAGGATTGAAGATTTCATCTCCTCGAAGTTGCAGCGGAGCAGATCTTTGAAGATGGCTAATCTT
1 TGAAGATTGAAGATTTCATCTCC-CGAAATAGCAGCGGAGCAGATC---GAAGATGGCTAATCTT
* * * *
31609293 ATCTCCATGTATTGGCAATGGGGCAGATCTAAGCCATCAGCCTTATCTCTCTAAGGTAGCAAGAG
62 ATCTCCATGTATTGGCAATGGAGCAGATTTTAGCCA-CAGCCTTATCTCTCTGAGGTAGCAAGAG
* * * * *
31609358 AACAGGTTGAAGAATGAGTCTTATCCTT-ATGAGGTAGCAAGAAAGTAGAC
126 AGCAGGTTGAAAAATGAGTCTTAT-CTTCCTGAGGTAACAAGAAAGCAGAC
* * * * *
31609408 TGAAGATTGAAGATTTTATCTCCCTAAACAGTAGCGGAGCAGATCGAAGATGGCAAATCTTATCT
1 TGAAGATTGAAGATTTCATCTCCCGAAATAGCAGCGGAGCAGATCGAAGATGGCTAATCTTATCT
* * * * *
31609473 CCATGTATCGAG-AATGGAGCGGATTTTAGCCACTGGCCTTATCTCTCTGAGGTAGCAGGAAAGC
66 CCATGTATTG-GCAATGGAGCAGATTTTAGCCAC-AGCCTTATCTCTCTGAGGTAGCAAGAGAGC
*
31609537 AGGTTGAAAAATGAGTCTTATCTTCCTGAGGTAACAAGGAAGCAGAC
129 AGGTTGAAAAATGAGTCTTATCTTCCTGAGGTAACAAGAAAGCAGAC
* * * *
31609584 TCAGGATTGAAGATTTCATCTCCTCGAAGTTA-CAGCGGAGCAGATCTTTGAAGGTGGCTAATCT
1 TGAAGATTGAAGATTTCATCTCC-CGAA-ATAGCAGCGGAGCAGATC---GAAGATGGCTAATCT
* * * *
31609648 TATCTCCATATATTGGCAAT-GAGACAGATCTGAGCCATCAGCCTTATCTCTTTGAGGTAGCAAG
61 TATCTCCATGTATTGGCAATGGAG-CAGATTTTAGCCA-CAGCCTTATCTCTCTGAGGTAGCAAG
* * *
31609712 AGAGCAGGTTGAAGAATGAGTCTTGTCTTTCTGAGGTA
124 AGAGCAGGTTGAAAAATGAGTCTTATCTTCCTGAGGTA
31609750 GAAAGGAGGT
Statistics
Matches: 590, Mismatches: 86, Indels: 40
0.82 0.12 0.06
Matches are distributed among these distances:
175 63 0.11
176 240 0.41
177 35 0.06
178 1 0.00
179 21 0.04
180 226 0.38
181 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (175 bp):
TGAAGATTGAAGATTTCATCTCCCGAAATAGCAGCGGAGCAGATCGAAGATGGCTAATCTTATCT
CCATGTATTGGCAATGGAGCAGATTTTAGCCACAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAG
GTTGAAAAATGAGTCTTATCTTCCTGAGGTAACAAGAAAGCAGAC
Found at i:31609627 original size:356 final size:356
Alignment explanation
Indices: 31608932--31609779 Score: 1351
Period size: 356 Copynumber: 2.4 Consensus size: 356
31608922 GAAAATGGTG
* * * * *
31608932 AATCTTATCTCCATGTATTGGCAATGGAGCAAATTTTA-CCACCAGCCTTATCTCTCTAAGGTAG
1 AATCTTATCTCCATGTATTGGCAATGGGGCAGATCTAAGCCATCAGCCTTATCTCTCTAAGGTAG
*
31608996 CAAGA-AGGCAGGTTGAAAAATGAGTCTTATCTTTCTGAGGTAGCAAGAAAGTAGACTGAAGATT
66 CAAGAGA-GCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGCAAGAAAGTAGACTGAAGATT
* * * *
31609060 GAAGATCTTATCTCCCTAAATAGTAGCAGAGCAGATCGAATATGGCGAATCTTATCTCCATGTAT
130 GAAGATTTTATCTCCCTAAACAGTAGCAGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTAT
*
31609125 CGGCAATGGAGCGGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAA
195 CGGCAATGGAGCGGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAAAGCAGGTTGAAA
*
31609190 AAAGAGTCTTATCTACCTGAGGTAACAAGGAAGCAGACTGAGGATTGAAGATTTCATCTCCTCGA
260 AAAGAGTCTTATCTACCTGAGGTAACAAGGAAGCAGACTCAGGATTGAAGATTTCATCTCCTCGA
*
31609255 AGTTGCAGCGGAGCAGATCTTTGAAGATGGCT
325 AGTTACAGCGGAGCAGATCTTTGAAGATGGCT
31609287 AATCTTATCTCCATGTATTGGCAATGGGGCAGATCTAAGCCATCAGCCTTATCTCTCTAAGGTAG
1 AATCTTATCTCCATGTATTGGCAATGGGGCAGATCTAAGCCATCAGCCTTATCTCTCTAAGGTAG
* * *
31609352 CAAGAGAACAGGTTGAAGAATGAGTCTTATCCTTATGAGGTAGCAAGAAAGTAGACTGAAGATTG
66 CAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGCAAGAAAGTAGACTGAAGATTG
*
31609417 AAGATTTTATCTCCCTAAACAGTAGCGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATC
131 AAGATTTTATCTCCCTAAACAGTAGCAGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATC
* *
31609482 GAG-AATGGAGCGGATTTTAGCCACTGGCCTTATCTCTCTGAGGTAGCAGGAAAGCAGGTTGAAA
196 G-GCAATGGAGCGGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAAAGCAGGTTGAAA
* *
31609546 AATGAGTCTTATCTTCCTGAGGTAACAAGGAAGCAGACTCAGGATTGAAGATTTCATCTCCTCGA
260 AAAGAGTCTTATCTACCTGAGGTAACAAGGAAGCAGACTCAGGATTGAAGATTTCATCTCCTCGA
*
31609611 AGTTACAGCGGAGCAGATCTTTGAAGGTGGCT
325 AGTTACAGCGGAGCAGATCTTTGAAGATGGCT
* * * * * *
31609643 AATCTTATCTCCATATATTGGCAATGAGACAGATCTGAGCCATCAGCCTTATCTCTTTGAGGTAG
1 AATCTTATCTCCATGTATTGGCAATGGGGCAGATCTAAGCCATCAGCCTTATCTCTCTAAGGTAG
* * * * *
31609708 CAAGAGAGCAGGTTGAAGAATGAGTCTTGTCTTTCTGAGGTAGAAAGGAGGTAGACTAAAGATTG
66 CAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGCAAGAAAGTAGACTGAAGATTG
*
31609773 TAGATTT
131 AAGATTT
31609780 ATTTCCCAAA
Statistics
Matches: 453, Mismatches: 37, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
355 34 0.08
356 417 0.92
357 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (356 bp):
AATCTTATCTCCATGTATTGGCAATGGGGCAGATCTAAGCCATCAGCCTTATCTCTCTAAGGTAG
CAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGCAAGAAAGTAGACTGAAGATTG
AAGATTTTATCTCCCTAAACAGTAGCAGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATC
GGCAATGGAGCGGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAAAGCAGGTTGAAAA
AAGAGTCTTATCTACCTGAGGTAACAAGGAAGCAGACTCAGGATTGAAGATTTCATCTCCTCGAA
GTTACAGCGGAGCAGATCTTTGAAGATGGCT
Found at i:31610033 original size:16 final size:16
Alignment explanation
Indices: 31610012--31610043 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31610002 AGAGAAAAAC
*
31610012 CAAAAATAAAAATAAA
1 CAAAAACAAAAATAAA
31610028 CAAAAACAAAAATAAA
1 CAAAAACAAAAATAAA
31610044 TTAAGATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.81, C:0.09, G:0.00, T:0.09
Consensus pattern (16 bp):
CAAAAACAAAAATAAA
Found at i:31613874 original size:59 final size:54
Alignment explanation
Indices: 31613731--31613891 Score: 171
Period size: 54 Copynumber: 2.9 Consensus size: 54
31613721 GAGGGGAAGA
* ** *
31613731 AGCCAAAGTGAAAACCCACAAAGGGCGCTTTGAGACTTTCTAAAAAAAAGGGGG
1 AGCCAAAGTGAAAACCCACAAAGGGCGCTTTGAGACCTAATAAAAAAAAGAGGG
* * * *
31613785 GGCCAAAGTGAAAACTCGCAAAGGGCGCTTTGAGACCTAATAAAAATGACAAGATATGG
1 AGCCAAAGTGAAAACCCACAAAGGGCGCTTTGAGACCTAATAAAAA--A-AAG--AGGG
* *
31613844 AGCCAAAGTGAAAACCCACAAAGAGTGCTTTGAGA-CTCAATAAAAAAA
1 AGCCAAAGTGAAAACCCACAAAGGGCGCTTTGAGACCT-AATAAAAAAA
31613892 TAAAGTCAAA
Statistics
Matches: 88, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
54 40 0.45
56 2 0.02
57 4 0.05
58 2 0.02
59 40 0.45
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (54 bp):
AGCCAAAGTGAAAACCCACAAAGGGCGCTTTGAGACCTAATAAAAAAAAGAGGG
Found at i:31615109 original size:43 final size:43
Alignment explanation
Indices: 31615031--31615112 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
31615021 GCCACCAAGC
* **
31615031 CTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAGATTGAGT
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGACTGAAGATTGAGT
31615074 CTTATCT-TCCTGAGGTAGCAA-AGAAGCAGACTGAAGATT
1 CTTATCTCT-CTGAGGTAGCAAGAG-AGCAGACTGAAGATT
31615113 AAAGATCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 3 0.09
43 31 0.91
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
CTTATCTCTCTGAGGTAGCAAGAGAGCAGACTGAAGATTGAGT
Found at i:31615168 original size:33 final size:33
Alignment explanation
Indices: 31615089--31615154 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
31615079 CTTCCTGAGG
31615089 TAGCAAAGAAGCAGACTGAAGATTAAAGATCTT
1 TAGCAAAGAAGCAGACTGAAGATTAAAGATCTT
31615122 TAGCAAAGAAGCAGACTGAAGATTAAAGATCTT
1 TAGCAAAGAAGCAGACTGAAGATTAAAGATCTT
31615155 ATCTCCCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.21
Consensus pattern (33 bp):
TAGCAAAGAAGCAGACTGAAGATTAAAGATCTT
Found at i:31615300 original size:210 final size:210
Alignment explanation
Indices: 31614938--31615328 Score: 622
Period size: 210 Copynumber: 1.9 Consensus size: 210
31614928 TGGTGAAGTC
* * *
31614938 AGATCTTATCTCCCTAATCAGTGGCCGAGCAGATCGAAGATGCCGAATCTTATCTCCATATATCG
1 AGATCTTATCTCCCTAAGCAGTAGCCGAGCAGATCGAAGATGCCGAATCTTATATCCATATATCG
** * * *
31615003 GCAATGGAGTAGATCTAAGCCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAGA
66 AAAATGGAGCAGATCTAAGCCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGAAGGTTAAAGA
31615068 TTGAGTCTTATCTTCCTGAGGTAGCAAAGAAGCAGACTGAAGATTAAAGATCTTTAGCAAAGAAG
131 TTGAGTCTTATCTTCCTGAGGTAGCAAAGAAGCAGACTGAAGATTAAAGATCTTTAGCAAAGAAG
31615133 CAGACTGAAGATTAA
196 CAGACTGAAGATTAA
** * *
31615148 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGA-GGCGAATCTTATATCCATGTATC
1 AGATCTTATCTCCCTAAGCAGTAGCCGAGCAGATCG-AAGATGCCGAATCTTATATCCATATATC
* *
31615212 GAAAATGGAGCAGTTTTAAGCCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGAAGGTTAAAG
65 GAAAATGGAGCAGATCTAAGCCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGAAGGTTAAAG
* *
31615277 ATTGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
130 ATTGAGTCTTATCTTCCTGAGGTAGCAAAGAAGCAGACTGAAGATTAAAGAT
31615329 ATTATCTCCC
Statistics
Matches: 164, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
210 160 0.98
211 4 0.02
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (210 bp):
AGATCTTATCTCCCTAAGCAGTAGCCGAGCAGATCGAAGATGCCGAATCTTATATCCATATATCG
AAAATGGAGCAGATCTAAGCCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGAAGGTTAAAGA
TTGAGTCTTATCTTCCTGAGGTAGCAAAGAAGCAGACTGAAGATTAAAGATCTTTAGCAAAGAAG
CAGACTGAAGATTAA
Found at i:31615455 original size:90 final size:88
Alignment explanation
Indices: 31615192--31615455 Score: 214
Period size: 90 Copynumber: 3.0 Consensus size: 88
31615182 CGAAAGAGGC
* * ** * *
31615192 GAATCTTATATCCATGTATCGAAAATGGAGCAGTTTTAAGCCACCAAGCCTTATCTCTCTGAGGT
1 GAATCTTATTTCCATGTATTGGCAATGGAGCAGATTTAAGCTACCAAGCCTTATCTCTCTGAGGT
* *
31615257 AGCAAGAGAGAAGGTTAAAGATT
66 AGCAAGAGAGCAGGTTGAAGATT
* * * * * * ** ** *
31615280 GAGTCTTATCTTCC-TG-AGGTAGCAA-GGAAGCAGACTGAAGAT-TGAAGATATTATCTCCCTG
1 GAATCTTAT-TTCCATGTA-TTGGCAATGG-AGCAGATTTAAGCTACCAAG-CCTTATCTCTCTG
* * * * *
31615341 AAGTTGC-AGCGGAGCAGATCGAAGATGGT
62 AGGTAGCAAG-AGAGCAGGTTGAAGAT--T
31615370 GAATCTTATTTCCATGTATTGGCAATGGAGCAGATTTAAGCTACCAAGCCTTATCTCTCTGAGGT
1 GAATCTTATTTCCATGTATTGGCAATGGAGCAGATTTAAGCTACCAAGCCTTATCTCTCTGAGGT
31615435 AGCAAGAGAGCAGGTTGAAGA
66 AGCAAGAGAGCAGGTTGAAGA
31615456 AATTGGTCTT
Statistics
Matches: 124, Mismatches: 40, Indels: 22
0.67 0.22 0.12
Matches are distributed among these distances:
87 8 0.06
88 47 0.38
89 7 0.06
90 54 0.44
91 8 0.06
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (88 bp):
GAATCTTATTTCCATGTATTGGCAATGGAGCAGATTTAAGCTACCAAGCCTTATCTCTCTGAGGT
AGCAAGAGAGCAGGTTGAAGATT
Found at i:31615575 original size:178 final size:176
Alignment explanation
Indices: 31615122--31615598 Score: 559
Period size: 178 Copynumber: 2.7 Consensus size: 176
31615112 TAAAGATCTT
* * * *
31615122 TAGCAAAGAAGCAGACTGAAGATTAAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA
1 TAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAACAGTTGTGGAGCAGATC-AAA
* *
31615187 GA-GGCGAATCTTATATCCATGTATCGAAAATGGAGCAGTTTTAAGCCACCAAGCCTTATCTCTC
65 GATGGCGAATCTTATATCCATGTATCG-CAATGGAGCAGATTTAAGCCACCAAGCCTTATCTCTC
* *
31615251 TGAGGTAGCAAGAGAGAAGGTTAAAGATTGAGTCTTATCTTCCTGAGG
129 TGAGGTAGCAAGAGAGAAGGTTAAAAATTGAGTCTTATCTTCCTGAAG
* * * *
31615299 TAGCAAGGAAGCAGACTGAAGATTGAAGATATTATCTCCCT-GA-AGTTGCAGCGGAGCAGATCG
1 TAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAACAGTT---GTGGAGCAGATCA
* * * *
31615362 AAGATGGTGAATCTTATTTCCATGTATTGGCAATGGAGCAGATTTAAGCTACCAAGCCTTATCTC
63 AAGATGGCGAATCTTATATCCATGTA-TCGCAATGGAGCAGATTTAAGCCACCAAGCCTTATCTC
* *
31615427 TCTGAGGTAGCAAGAGAGCAGGTTGAAGAAATTG-GTCTTATCTTCTTGAAG
127 TCTGAGGTAGCAAGAGAGAAGGTT-AA-AAATTGAGTCTTATCTTCCTGAAG
* * * * * *
31615478 TAGCAAGGAAGCAGACTGAAGATTGAGGATCTTGTCTCCTTAAACAGTTTTGGAGTAGGTCAAAG
1 TAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAACAGTTGTGGAGCAGATCAAAG
* * * * * * *
31615543 ATAGCAAATTTTATCTCCACGTATCAGCAATGGAGCAAATTTAAGTCACC-AGCCTT
66 ATGGCGAATCTTATATCCATGTATC-GCAATGGAGCAGATTTAAGCCACCAAGCCTT
31615599 GTCTACCTGA
Statistics
Matches: 252, Mismatches: 38, Indels: 20
0.81 0.12 0.06
Matches are distributed among these distances:
175 3 0.01
177 49 0.19
178 134 0.53
179 56 0.22
180 6 0.02
181 4 0.02
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (176 bp):
TAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAACAGTTGTGGAGCAGATCAAAG
ATGGCGAATCTTATATCCATGTATCGCAATGGAGCAGATTTAAGCCACCAAGCCTTATCTCTCTG
AGGTAGCAAGAGAGAAGGTTAAAAATTGAGTCTTATCTTCCTGAAG
Found at i:31619266 original size:24 final size:24
Alignment explanation
Indices: 31619236--31619293 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
31619226 ACATATTTTT
31619236 ATACATTTGTACAATATCAATACC
1 ATACATTTGTACAATATCAATACC
*
31619260 ATACATTTGTACAATATGAATACC
1 ATACATTTGTACAATATCAATACC
*
31619284 ATACAATTGT
1 ATACATTTGT
31619294 CATGCTTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.34
Consensus pattern (24 bp):
ATACATTTGTACAATATCAATACC
Found at i:31626376 original size:40 final size:40
Alignment explanation
Indices: 31626190--31626377 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
31626180 CTCCTCGTTT
* *
31626190 AAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
* *
31626230 AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
* * *
31626270 AAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
* * * * * *
31626310 AAAGGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCAC
1 AAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCAC
31626351 AAA-GCCTTCGGGACTTAGCCCGGATAT
1 AAATGCCTTCGGGACTTAGCCCGGATAT
31626378 CATTCAAATA
Statistics
Matches: 129, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.89
41 11 0.09
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
Found at i:31628521 original size:46 final size:46
Alignment explanation
Indices: 31628448--31628591 Score: 191
Period size: 46 Copynumber: 3.1 Consensus size: 46
31628438 GGCTGTCACA
* * * *
31628448 ATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
1 ATGGCAACATGACATGAAAAGAGTAAGACCATGGTTGAAAGATACC
* *
31628494 ATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
1 ATGGCAACATGACATGAAAAGAGTAAGACCATGGTTGAAAGATACC
* * *
31628540 ATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACT
1 ATGGCAACATGACATGAAAA-GAGTAAGACCATGGTTGAAAGATACC
31628586 ATGGCA
1 ATGGCA
31628592 TCACGTCAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 5 0.06
46 82 0.94
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (46 bp):
ATGGCAACATGACATGAAAAGAGTAAGACCATGGTTGAAAGATACC
Found at i:31628891 original size:23 final size:25
Alignment explanation
Indices: 31628846--31628892 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
31628836 AATAAATATA
*
31628846 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
31628871 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
31628893 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:31631563 original size:35 final size:35
Alignment explanation
Indices: 31631518--31631588 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
31631508 AAATACAATA
*
31631518 AAATCGATTATCTATGTTAAATTTTATAAATTAAT
1 AAATCGATTATCCATGTTAAATTTTATAAATTAAT
*
31631553 AAATTGATTATCCATGTTAAATTTTATAAATTAAT
1 AAATCGATTATCCATGTTAAATTTTATAAATTAAT
31631588 A
1 A
31631589 TCTATTTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.45
Consensus pattern (35 bp):
AAATCGATTATCCATGTTAAATTTTATAAATTAAT
Found at i:31637976 original size:57 final size:57
Alignment explanation
Indices: 31637901--31638017 Score: 198
Period size: 57 Copynumber: 2.1 Consensus size: 57
31637891 ATAATATCTT
31637901 ATAGAAAGAACTAGGAAATGAGTATGTTGAAGAGACCTACTGCTGAGTTTGATGATA
1 ATAGAAAGAACTAGGAAATGAGTATGTTGAAGAGACCTACTGCTGAGTTTGATGATA
* * * *
31637958 ATAGATAGAAGTAGGAAATGAGTATGTTGAAGAGACCTACTGTTGAGTTTGGTGATA
1 ATAGAAAGAACTAGGAAATGAGTATGTTGAAGAGACCTACTGCTGAGTTTGATGATA
31638015 ATA
1 ATA
31638018 TATTCTTTAG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.28
Consensus pattern (57 bp):
ATAGAAAGAACTAGGAAATGAGTATGTTGAAGAGACCTACTGCTGAGTTTGATGATA
Found at i:31643890 original size:36 final size:36
Alignment explanation
Indices: 31643800--31643897 Score: 89
Period size: 35 Copynumber: 2.8 Consensus size: 36
31643790 TAGAAAAAAA
* *
31643800 TTATAAAAAATTAA-AATTAATA-AAAACTA-TAAATT
1 TTATTAAAAATTAATAA-AAATATAAAA-TATTAAATT
**
31643835 TTATTAAATTTTAATAAAAAT-TAAAATATTAAATAT
1 TTATTAAAAATTAATAAAAATATAAAATATTAAAT-T
31643871 TTATTAAAAATTAGA-AAAAATATAAAA
1 TTATTAAAAATTA-ATAAAAATATAAAA
31643898 AATTGTAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
34 2 0.04
35 23 0.45
36 20 0.39
37 6 0.12
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (36 bp):
TTATTAAAAATTAATAAAAATATAAAATATTAAATT
Found at i:31644567 original size:8 final size:8
Alignment explanation
Indices: 31644518--31644582 Score: 53
Period size: 8 Copynumber: 8.0 Consensus size: 8
31644508 CAAACAAATT
31644518 ATTATAAA
1 ATTATAAA
31644526 ATT-TAAA
1 ATTATAAA
* *
31644533 AATAAAAA
1 ATTATAAA
*
31644541 ATACATAAATA
1 AT-TAT-AA-A
31644552 ATTA-AAA
1 ATTATAAA
31644559 ATTATAAA
1 ATTATAAA
31644567 ATTATAAA
1 ATTATAAA
*
31644575 ATTTTAAA
1 ATTATAAA
31644583 TTTAAAAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
7 11 0.24
8 27 0.60
9 1 0.02
10 3 0.07
11 3 0.07
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (8 bp):
ATTATAAA
Found at i:31644591 original size:16 final size:16
Alignment explanation
Indices: 31644518--31644591 Score: 53
Period size: 16 Copynumber: 4.6 Consensus size: 16
31644508 CAAACAAATT
*
31644518 ATTATAAAATT-TAAA
1 ATTAAAAAATTATAAA
* *
31644533 AATAAAAAATACATAAATA
1 ATTAAAAAAT-TAT-AA-A
31644552 ATT-AAAAATTATAAA
1 ATTAAAAAATTATAAA
* *
31644567 ATTATAAAATTTTAAA
1 ATTAAAAAATTATAAA
*
31644583 TTTAAAAAA
1 ATTAAAAAA
31644592 AATTAACCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
15 12 0.27
16 19 0.42
17 3 0.07
18 8 0.18
19 3 0.07
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (16 bp):
ATTAAAAAATTATAAA
Found at i:31646761 original size:17 final size:18
Alignment explanation
Indices: 31646728--31646761 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
31646718 AGAATATGAG
*
31646728 TTGAGCTGAATTTGATAA
1 TTGAGCTGAAATTGATAA
31646746 TTGAGCT-AAATTGATA
1 TTGAGCTGAAATTGATA
31646762 TGAATTCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (18 bp):
TTGAGCTGAAATTGATAA
Found at i:31649264 original size:20 final size:20
Alignment explanation
Indices: 31649201--31649280 Score: 70
Period size: 20 Copynumber: 4.0 Consensus size: 20
31649191 CAAATGCCAT
* *
31649201 ACAGAAGCACCATAGTGCAA
1 ACAGAGGCACCAAAGTGCAA
** * * * *
31649221 TTAGAGACACTAAAGTGTAT
1 ACAGAGGCACCAAAGTGCAA
31649241 ACAGAGGCACCAAAGTGCAA
1 ACAGAGGCACCAAAGTGCAA
* *
31649261 ACAGAGCCACCGAAGTGCAA
1 ACAGAGGCACCAAAGTGCAA
31649281 GTCCCGTACA
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.42, C:0.23, G:0.23, T:0.12
Consensus pattern (20 bp):
ACAGAGGCACCAAAGTGCAA
Found at i:31649277 original size:40 final size:40
Alignment explanation
Indices: 31649199--31649277 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 40
31649189 ATCAAATGCC
* ** *
31649199 ATACAGAAGCACCATAGTGCAATTAGAGACACTAAAGTGT
1 ATACAGAAGCACCAAAGTGCAAACAGAGACACCAAAGTGT
* * *
31649239 ATACAGAGGCACCAAAGTGCAAACAGAGCCACCGAAGTG
1 ATACAGAAGCACCAAAGTGCAAACAGAGACACCAAAGTG
31649278 CAAGTCCCGT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.14
Consensus pattern (40 bp):
ATACAGAAGCACCAAAGTGCAAACAGAGACACCAAAGTGT
Done.