Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 20 of 103
Found at i:7316693 original size:43 final size:43
Alignment explanation
Indices: 7316598--7316730 Score: 137
Period size: 43 Copynumber: 3.1 Consensus size: 43
7316588 TGTTATATGA
* * *
7316598 TGATATTGACCA-AGCTATGTGCTAGT-GGGAGTGCTCATAAGC
1 TGATGTTGACCAGA-CTATGTGCAAGTAGGGAGTGCGCATAAGC
* * * *
7316640 CGATGCTGACCAGACTATGTGCAAGTAGAGAGTGCGCATAAGT
1 TGATGTTGACCAGACTATGTGCAAGTAGGGAGTGCGCATAAGC
* * *
7316683 TGATGTTGACCCAG-CTATGTGCGAGTAGGGAGTGCACATGAGC
1 TGATGTTGA-CCAGACTATGTGCAAGTAGGGAGTGCGCATAAGC
7316726 TGATG
1 TGATG
7316731 ATGATGAGGT
Statistics
Matches: 74, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
42 20 0.27
43 50 0.68
44 4 0.05
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (43 bp):
TGATGTTGACCAGACTATGTGCAAGTAGGGAGTGCGCATAAGC
Found at i:7323503 original size:17 final size:17
Alignment explanation
Indices: 7323477--7323537 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
7323467 CAAGAGAAAT
7323477 AAAAAA-AGAAAGGAGA
1 AAAAAAGAGAAAGGAGA
*
7323493 AAAAAAGAG-AAGAAGGA
1 AAAAAAGAGAAAGGA-GA
*
7323510 AAGAAAGAGAAA--A-A
1 AAAAAAGAGAAAGGAGA
*
7323524 GAAAAAGAGAAAGG
1 AAAAAAGAGAAAGG
7323538 GAGAGTGGCG
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
14 11 0.31
16 11 0.31
17 12 0.33
18 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (17 bp):
AAAAAAGAGAAAGGAGA
Found at i:7323576 original size:48 final size:49
Alignment explanation
Indices: 7323509--7323626 Score: 127
Period size: 48 Copynumber: 2.4 Consensus size: 49
7323499 GAGAAGAAGG
* *
7323509 AAAGAAAGAGAAAAAGAAAAAGAGAAAGG-GAG-AGTGGCGTGCTGGAGAA
1 AAAGAAAGAGAAAAAG-AAAAGAG-AAGGAGAGCAGAGGCGTGCTAGAGAA
** *
7323558 AAAGAAAGA-AAAGGGAAAAGAGAGGGAGAGCAGAGGCGTGCTAGAGAA
1 AAAGAAAGAGAAAAAGAAAAGAGAAGGAGAGCAGAGGCGTGCTAGAGAA
* *
7323606 AAAGAAAAAGAGAAA-AAAAGA
1 AAAGAAAGAGAAAAAGAAAAGA
7323627 AAGAAAAAGG
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
46 3 0.05
47 10 0.18
48 33 0.58
49 11 0.19
ACGTcount: A:0.57, C:0.04, G:0.35, T:0.04
Consensus pattern (49 bp):
AAAGAAAGAGAAAAAGAAAAGAGAAGGAGAGCAGAGGCGTGCTAGAGAA
Found at i:7323684 original size:60 final size:63
Alignment explanation
Indices: 7323553--7323707 Score: 185
Period size: 60 Copynumber: 2.5 Consensus size: 63
7323543 TGGCGTGCTG
* *
7323553 GAGAAAAAGAAAGAAAAGGGAAAAGAGAGGGAGAGCAGAGGCGTGCTAGAGAAAAAGAAAAAGA
1 GAGAAAAAGAAAGAAAAAGG-AAAGAGAGGGAGAGCAGACGCGTGCTAGAGAAAAAGAAAAAGA
* * * *
7323617 GAAAAAAAGAAAGAAAAAGG-AAGAGAGGGAGAGCAG-CG-GTGC-AGGAGGAGAAGAAAGAGA
1 GAGAAAAAGAAAGAAAAAGGAAAGAGAGGGAGAGCAGACGCGTGCTA-GAGAAAAAGAAAAAGA
* *
7323677 GAGAAAAA-AAAGAAAAAGAAAAAAGAGGGAG
1 GAGAAAAAGAAAGAAAAAGGAAAGAGAGGGAG
7323708 GGAAGGAAGA
Statistics
Matches: 80, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
59 11 0.14
60 34 0.43
61 1 0.01
62 16 0.20
64 18 0.22
ACGTcount: A:0.58, C:0.04, G:0.36, T:0.02
Consensus pattern (63 bp):
GAGAAAAAGAAAGAAAAAGGAAAGAGAGGGAGAGCAGACGCGTGCTAGAGAAAAAGAAAAAGA
Found at i:7323811 original size:15 final size:16
Alignment explanation
Indices: 7323786--7323824 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
7323776 AGATGAAGAA
7323786 AAAAATAATAATAATT
1 AAAAATAATAATAATT
7323802 AAAAAT-ATAATAA-T
1 AAAAATAATAATAATT
*
7323816 AATAATAAT
1 AAAAATAAT
7323825 GGGTTTCACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 6 0.29
15 9 0.43
16 6 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAAATAATAATAATT
Found at i:7323811 original size:18 final size:18
Alignment explanation
Indices: 7323784--7323818 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7323774 GGAGATGAAG
7323784 AAAAAAATAATAATAATT
1 AAAAAAATAATAATAATT
*
7323802 AAAAATATAATAATAAT
1 AAAAAAATAATAATAAT
7323819 AATAATGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAAAATAATAATAATT
Found at i:7324469 original size:58 final size:58
Alignment explanation
Indices: 7324350--7324585 Score: 303
Period size: 58 Copynumber: 4.0 Consensus size: 58
7324340 TTCTACGCAA
* * * ** *
7324350 GTAAAAGGGGACTTGAAGCCCCGATTTATATATGGTGGCATGGGTAA-TTCCCATAAATAG
1 GTAAAGGGGGACCTGAAGCCCCGA-TT-CATATGGTGGCATGGG-AAGTTCCCACGAGTAG
* *
7324410 GTAAAGGGGGACTTGAAGCCCCGATTCATATGGTGGCATGGGAAGTTCCCATGAGTAG
1 GTAAAGGGGGACCTGAAGCCCCGATTCATATGGTGGCATGGGAAGTTCCCACGAGTAG
* * * *
7324468 GTAAAGGGGGACCCGAAGCCCCGATTCGTATGGTGGCGTGGGCAGTTCCCACGAGTAG
1 GTAAAGGGGGACCTGAAGCCCCGATTCATATGGTGGCATGGGAAGTTCCCACGAGTAG
* * *
7324526 GTAAAGGGGGACCTGAAGCTCCGATTCATATGGTGGCGTGGGCAGTTCCCACGAGTAG
1 GTAAAGGGGGACCTGAAGCCCCGATTCATATGGTGGCATGGGAAGTTCCCACGAGTAG
7324584 GT
1 GT
7324586 GATGATGTCT
Statistics
Matches: 162, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
57 2 0.01
58 135 0.83
59 2 0.01
60 23 0.14
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (58 bp):
GTAAAGGGGGACCTGAAGCCCCGATTCATATGGTGGCATGGGAAGTTCCCACGAGTAG
Found at i:7340093 original size:12 final size:12
Alignment explanation
Indices: 7340076--7340102 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7340066 AAGAAAATAG
7340076 AATATTTTATTT
1 AATATTTTATTT
7340088 AATATTTTATTT
1 AATATTTTATTT
7340100 AAT
1 AAT
7340103 TTGAATAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
AATATTTTATTT
Found at i:7348186 original size:42 final size:41
Alignment explanation
Indices: 7348123--7348244 Score: 172
Period size: 42 Copynumber: 2.9 Consensus size: 41
7348113 GAGATAATTA
*
7348123 TGACCCAGCCATGTGCGGTGTAAGAGTGCACATGAGCTATGT
1 TGACCCAGCCATGTGC-GTGTAAGAGTGCACATGAGCTATGC
* * *
7348165 TGACCCAGCCATGTGCTGTGTATGAGTGCACATGAGTTGTGC
1 TGACCCAGCCATGTGC-GTGTAAGAGTGCACATGAGCTATGC
*
7348207 TGACCCAGCCATGTGCGTTGTAAGAGTGTACATGAGCT
1 TGACCCAGCCATGTGCG-TGTAAGAGTGCACATGAGCT
7348245 GATGAGGACC
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
41 1 0.01
42 70 0.99
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.26
Consensus pattern (41 bp):
TGACCCAGCCATGTGCGTGTAAGAGTGCACATGAGCTATGC
Found at i:7348230 original size:84 final size:85
Alignment explanation
Indices: 7348123--7348288 Score: 228
Period size: 84 Copynumber: 2.0 Consensus size: 85
7348113 GAGATAATTA
** * *
7348123 TGACCCAGCCATGTGCGGTGTAAGAGTGCACATGAGCT-ATGTTGACCCAGCCATGTGCTGTGT-
1 TGACCCAGCCATGTGCGGTGTAAGAGTGCACATGAGCTGATGAGGACCCAACCATGTGCGGTGTG
* *
7348186 ATGAGTGCACATGAGTTGTGC
66 GT-AGTGCACATAAGTTGTGC
* * *
7348207 TGACCCAGCCATGTGCGTTGTAAGAGTGTACATGAGCTGATGAGGACCCAACTATGTGCGGTGTG
1 TGACCCAGCCATGTGCGGTGTAAGAGTGCACATGAGCTGATGAGGACCCAACCATGTGCGGTGTG
7348272 GTAGTGCACATAAGTTG
66 GTAGTGCACATAAGTTG
7348289 AGACAGAGTT
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
84 36 0.51
85 34 0.48
86 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (85 bp):
TGACCCAGCCATGTGCGGTGTAAGAGTGCACATGAGCTGATGAGGACCCAACCATGTGCGGTGTG
GTAGTGCACATAAGTTGTGC
Found at i:7349215 original size:19 final size:20
Alignment explanation
Indices: 7349169--7349217 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
7349159 ATTTAGTTAT
*
7349169 TTTTAGTTTTTTTTCTAATTA
1 TTTTA-TTTTTATTCTAATTA
* *
7349190 GTGTATTTTTATTC-AATTA
1 TTTTATTTTTATTCTAATTA
7349209 TTTTATTTT
1 TTTTATTTT
7349218 ATGCTACTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 12 0.52
20 8 0.35
21 3 0.13
ACGTcount: A:0.20, C:0.04, G:0.06, T:0.69
Consensus pattern (20 bp):
TTTTATTTTTATTCTAATTA
Found at i:7354565 original size:36 final size:35
Alignment explanation
Indices: 7354458--7354701 Score: 215
Period size: 35 Copynumber: 6.9 Consensus size: 35
7354448 AGTCCTTAAG
**** **
7354458 AAGCCCAATTAACTTAATTGTTTAATTTAATTGATT
1 AAGCCCAA-TAACTTAATTAAACAATTTAATCAATT
* * * *
7354494 AAGCCCATTAACTTAATTAAATAGTTTAATTAATT
1 AAGCCCAATAACTTAATTAAACAATTTAATCAATT
* *
7354529 AAGCCCAACAATTTAATTAAACAATTTTAATCAATT
1 AAGCCCAATAACTTAATTAAACAA-TTTAATCAATT
* *
7354565 AGGCCCAATGACTTAATTAAACAAATTTAATCAATT
1 AAGCCCAATAACTTAATTAAAC-AATTTAATCAATT
* * * *
7354601 AGGCCTAATGACTTAATTAAACAATTTAATTAATT
1 AAGCCCAATAACTTAATTAAACAATTTAATCAATT
* * * *
7354636 AGGTCCAATAATTTAATTAAACAATTTAATTAATT
1 AAGCCCAATAACTTAATTAAACAATTTAATCAATT
* *
7354671 -AG-GC-ACAACTTAATTAAACAATTTTAATCAA
1 AAGCCCAATAACTTAATTAAACAA-TTTAATCAA
7354702 GTGCTTGAGA
Statistics
Matches: 178, Mismatches: 27, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
32 15 0.08
33 9 0.05
34 1 0.01
35 84 0.47
36 67 0.38
37 2 0.01
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (35 bp):
AAGCCCAATAACTTAATTAAACAATTTAATCAATT
Found at i:7354571 original size:107 final size:107
Alignment explanation
Indices: 7354481--7354701 Score: 263
Period size: 107 Copynumber: 2.1 Consensus size: 107
7354471 TTAATTGTTT
** * * *
7354481 AATTTAATTGATTAAGCCCATTAACTTAATTAAATAGTTTAATTAATTAAGCCCAACAATTTAAT
1 AATTTAATCAATTAAGCCCAATAACTTAATTAAACAATTTAATTAATTAAGCCCAACAATTTAAT
*
7354546 TAAACAATTTTAATCAATTAGGCCCAA-TGACTTAATTAAACA
66 TAAACAA-TTTAATCAATTAGGCCCAATTAACTTAATTAAACA
* * * * * *
7354588 AATTTAATCAATTAGGCCTAATGACTTAATTAAACAATTTAATTAATTAGGTCCAATAATTTAAT
1 AATTTAATCAATTAAGCCCAATAACTTAATTAAACAATTTAATTAATTAAGCCCAACAATTTAAT
* *
7354653 TAAACAATTTAATTAATTAGG--C-A-CAACTTAATTAAACA
66 TAAACAATTTAATCAATTAGGCCCAATTAACTTAATTAAACA
*
7354691 ATTTTAATCAA
1 AATTTAATCAA
7354702 GTGCTTGAGA
Statistics
Matches: 99, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
103 24 0.24
104 1 0.01
106 13 0.13
107 61 0.62
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.36
Consensus pattern (107 bp):
AATTTAATCAATTAAGCCCAATAACTTAATTAAACAATTTAATTAATTAAGCCCAACAATTTAAT
TAAACAATTTAATCAATTAGGCCCAATTAACTTAATTAAACA
Found at i:7354672 original size:35 final size:35
Alignment explanation
Indices: 7354481--7354694 Score: 245
Period size: 35 Copynumber: 6.1 Consensus size: 35
7354471 TTAATTGTTT
* * * *
7354481 AATTTAATTGATTAAGCCCATTAACTTAATTAAAT
1 AATTTAATTAATTAGGCCCAATAACTTAATTAAAC
* * * *
7354516 AGTTTAATTAATTAAGCCCAACAATTTAATTAAAC
1 AATTTAATTAATTAGGCCCAATAACTTAATTAAAC
* *
7354551 AATTTTAATCAATTAGGCCCAATGACTTAATTAAAC
1 AA-TTTAATTAATTAGGCCCAATAACTTAATTAAAC
* * *
7354587 AAATTTAATCAATTAGGCCTAATGACTTAATTAAAC
1 -AATTTAATTAATTAGGCCCAATAACTTAATTAAAC
* *
7354623 AATTTAATTAATTAGGTCCAATAATTTAATTAAAC
1 AATTTAATTAATTAGGCCCAATAACTTAATTAAAC
*
7354658 AATTTAATTAATTAGG--C-ACAACTTAATTAAAC
1 AATTTAATTAATTAGGCCCAATAACTTAATTAAAC
7354690 AATTT
1 AATTT
7354695 TAATCAAGTG
Statistics
Matches: 157, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
32 18 0.11
33 1 0.01
35 76 0.48
36 60 0.38
37 2 0.01
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (35 bp):
AATTTAATTAATTAGGCCCAATAACTTAATTAAAC
Found at i:7359801 original size:179 final size:180
Alignment explanation
Indices: 7359581--7359908 Score: 541
Period size: 179 Copynumber: 1.8 Consensus size: 180
7359571 TTAATAGCAT
* *
7359581 AAATCAGCTTGTTTGGCCATGAAAATTTCCAGAAATAATCCTCATTGAACATTTTAATAAAGATA
1 AAATCAGCATGTTTGACCATGAAAATTTCCAGAAATAATCCTCATTGAACATTTTAATAAAGATA
* * * *
7359646 ATTTTTCTGGAATTTTTCAGAATTAATTT-TAAGAGTTTCTTGTCAATTAAATCTGAAATTCATG
66 ATTTTCCTGGAATTTTTCAGAATTAATTTCGAAGACTTTCTTGTCAATTAAAACTGAAATTCATG
7359710 CCAAAACAGTGAGCTGGACAGATTTATATTTGCACCAATTTTCTTGCTCG
131 CCAAAACAGTGAGCTGGACAGATTTATATTTGCACCAATTTTCTTGCTCG
* * *
7359760 AAATCAGCATGTTTGACCATGATATTTTCCAGAAATAATCCTTATTGAACATTTTAATAAAGATA
1 AAATCAGCATGTTTGACCATGAAAATTTCCAGAAATAATCCTCATTGAACATTTTAATAAAGATA
*
7359825 ATTTTCCTGGAATTTTTCAGAATTAATTTCGAAGACTTTCTTGTTAATTAAAACTGAAATTCATG
66 ATTTTCCTGGAATTTTTCAGAATTAATTTCGAAGACTTTCTTGTCAATTAAAACTGAAATTCATG
* *
7359890 TCATAACAGTGAGCTGGAC
131 CCAAAACAGTGAGCTGGAC
7359909 TGCTTTCACT
Statistics
Matches: 136, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
179 88 0.65
180 48 0.35
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (180 bp):
AAATCAGCATGTTTGACCATGAAAATTTCCAGAAATAATCCTCATTGAACATTTTAATAAAGATA
ATTTTCCTGGAATTTTTCAGAATTAATTTCGAAGACTTTCTTGTCAATTAAAACTGAAATTCATG
CCAAAACAGTGAGCTGGACAGATTTATATTTGCACCAATTTTCTTGCTCG
Found at i:7361132 original size:36 final size:36
Alignment explanation
Indices: 7361058--7361201 Score: 209
Period size: 36 Copynumber: 4.0 Consensus size: 36
7361048 AATATAATTT
* *
7361058 ATTAGGCCCAATAACTTAATTAAATAA-TTTAATTA
1 ATTAGGCCCAATAACTTAATTAAACAATTTTAATCA
* * *
7361093 ATTAAGCCCAACAATTTAATTAAACAATTTTAATCA
1 ATTAGGCCCAATAACTTAATTAAACAATTTTAATCA
* *
7361129 ATTAGGCCCAATGACTTAATTAAACAAATTTAATCA
1 ATTAGGCCCAATAACTTAATTAAACAATTTTAATCA
*
7361165 ATTAGGCCCAATGACTTAATTAAACAATTTTAATCA
1 ATTAGGCCCAATAACTTAATTAAACAATTTTAATCA
7361201 A
1 A
7361202 GTGCTTGAGA
Statistics
Matches: 97, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
35 23 0.24
36 74 0.76
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.33
Consensus pattern (36 bp):
ATTAGGCCCAATAACTTAATTAAACAATTTTAATCA
Found at i:7364100 original size:21 final size:21
Alignment explanation
Indices: 7364075--7364117 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
7364065 CCTTGTGAGA
7364075 TAAAAATTATTATTTTATTTG
1 TAAAAATTATTATTTTATTTG
7364096 TAAAAATTATTATTTTATTTG
1 TAAAAATTATTATTTTATTTG
7364117 T
1 T
7364118 TTAAGTTGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (21 bp):
TAAAAATTATTATTTTATTTG
Found at i:7370688 original size:13 final size:13
Alignment explanation
Indices: 7370670--7370694 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7370660 AGAGAAATTG
7370670 TGATTTTATAAAA
1 TGATTTTATAAAA
7370683 TGATTTTATAAA
1 TGATTTTATAAA
7370695 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:7376596 original size:22 final size:22
Alignment explanation
Indices: 7376568--7376630 Score: 108
Period size: 22 Copynumber: 2.9 Consensus size: 22
7376558 TATTGGCATC
*
7376568 AGAGCTTTTGGTTTTCAAGATA
1 AGAGCTTTTGGTTTTAAAGATA
7376590 AGAGCTTTTGGTTTTAAAGATA
1 AGAGCTTTTGGTTTTAAAGATA
*
7376612 AGAGTTTTTGGTTTTAAAG
1 AGAGCTTTTGGTTTTAAAG
7376631 TGGTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.29, C:0.05, G:0.24, T:0.43
Consensus pattern (22 bp):
AGAGCTTTTGGTTTTAAAGATA
Found at i:7381886 original size:28 final size:29
Alignment explanation
Indices: 7381845--7381904 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
7381835 GTCTATGGGC
*
7381845 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
7381873 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
7381903 AA
1 AA
7381905 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:7385712 original size:43 final size:43
Alignment explanation
Indices: 7385664--7385782 Score: 141
Period size: 44 Copynumber: 2.7 Consensus size: 43
7385654 TCGTCATGTT
* * *
7385664 CACTCCCTACTCGCACATAACAGGGTCATCATCGGCTTATGCG
1 CACTCCCTACTCGCACATAGCAGGGTCATCATCAGCTCATGCG
* *
7385707 CACTCCCTTACTCGCACATAGCCGGGTCATCATCAGCTCATGTG
1 CACTCCC-TACTCGCACATAGCAGGGTCATCATCAGCTCATGCG
* * *
7385751 CACTCTC-ACATTGCACATAGCTGGGTCATCAT
1 CACTCCCTAC-TCGCACATAGCAGGGTCATCAT
7385783 TATCACACAA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 2 0.03
43 27 0.41
44 37 0.56
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (43 bp):
CACTCCCTACTCGCACATAGCAGGGTCATCATCAGCTCATGCG
Found at i:7387318 original size:19 final size:19
Alignment explanation
Indices: 7387285--7387331 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
7387275 ATTTTCTTCT
*
7387285 CATTCTTCATGCTCCCACGC
1 CATT-TTCATACTCCCACGC
*
7387305 CATTTTCATACTCCCATGC
1 CATTTTCATACTCCCACGC
*
7387324 TATTTTCA
1 CATTTTCA
7387332 CCTTACCACC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.19, C:0.36, G:0.06, T:0.38
Consensus pattern (19 bp):
CATTTTCATACTCCCACGC
Found at i:7393069 original size:20 final size:20
Alignment explanation
Indices: 7393041--7393078 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7393031 ACCTAGCTTG
7393041 TTTCCTTG-ATTTCTTCACTT
1 TTTCCTTGAATTT-TTCACTT
*
7393061 TTTCTTTGAATTTTTCAC
1 TTTCCTTGAATTTTTCAC
7393079 CTAGGTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.13, C:0.21, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTCCTTGAATTTTTCACTT
Found at i:7393388 original size:27 final size:27
Alignment explanation
Indices: 7393337--7393388 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
7393327 ATGTCTTGGT
*
7393337 GGTGGAAAATTACAATTTTGCCCCTAG
1 GGTGGAAAATTACAATTTTGACCCTAG
7393364 GGTGGTAAAATTACAATTTT-ACCCT
1 GGTGG-AAAATTACAATTTTGACCCT
7393389 TTTACTCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTGACCCTAG
Found at i:7393459 original size:20 final size:20
Alignment explanation
Indices: 7393442--7393479 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7393432 CCTCAAATCT
*
7393442 TACTCCAGTAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
7393462 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
7393480 GGGGCCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:7395331 original size:31 final size:30
Alignment explanation
Indices: 7395296--7395379 Score: 71
Period size: 31 Copynumber: 2.7 Consensus size: 30
7395286 CATCTCAAGC
7395296 ACCAAGGCTGAAACAAATGTCAAGTCCAAAG
1 ACCAAGGCTGAAACAAAT-TCAAGTCCAAAG
* * * *
7395327 ACCAAAGTCT-AAACAAATACCAATTCCAATG
1 ACC-AAGGCTGAAACAAAT-TCAAGTCCAAAG
* * *
7395358 TCCAAAGTTGAAACAAATTCAA
1 ACCAAGGCTGAAACAAATTCAA
7395380 TTTCAATCCC
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
30 6 0.15
31 30 0.73
32 5 0.12
ACGTcount: A:0.48, C:0.23, G:0.12, T:0.18
Consensus pattern (30 bp):
ACCAAGGCTGAAACAAATTCAAGTCCAAAG
Found at i:7401332 original size:16 final size:15
Alignment explanation
Indices: 7401294--7401340 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
7401284 ATTTTCTTAG
*
7401294 TTATTACTTACTTATT
1 TTATTA-TTAATTATT
7401310 TTA-TATTAATTATAT
1 TTATTATTAATTAT-T
*
7401325 TTATTATTTATTATT
1 TTATTATTAATTATT
7401340 T
1 T
7401341 ATTTATCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 7 0.26
15 8 0.30
16 12 0.44
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATTATTAATTATT
Found at i:7401359 original size:23 final size:24
Alignment explanation
Indices: 7401305--7401360 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
7401295 TATTACTTAC
7401305 TTATTTTA-TATTAATTATATTTA
1 TTATTTTATTATTAATTATATTTA
*
7401328 TTA-TTTATTATTTATT-TATCTT-
1 TTATTTTATTATTAATTATAT-TTA
7401350 TTATTTTATTA
1 TTATTTTATTA
7401361 AAATATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (24 bp):
TTATTTTATTATTAATTATATTTA
Found at i:7402378 original size:4 final size:4
Alignment explanation
Indices: 7402369--7402419 Score: 57
Period size: 4 Copynumber: 11.8 Consensus size: 4
7402359 GTCTTATTCT
*
7402369 TTTA TTTA TTTA TTTA GTTTTA TTTCTA TTTA TTTA TTTA TTGA TTTA
1 TTTA TTTA TTTA TTTA --TTTA -TT-TA TTTA TTTA TTTA TTTA TTTA
7402417 TTT
1 TTT
7402420 TTTTTAAGAC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
4 31 0.74
5 5 0.12
6 6 0.14
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:7409874 original size:2 final size:2
Alignment explanation
Indices: 7409867--7409892 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7409857 AGCATAAGCC
7409867 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7409893 CATAATACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7411483 original size:2 final size:2
Alignment explanation
Indices: 7411476--7411521 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
7411466 GTGTAAGGAT
7411476 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7411518 TA TA
1 TA TA
7411522 AATCCTCTGC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7419420 original size:15 final size:15
Alignment explanation
Indices: 7419400--7419438 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
7419390 AAGTTGAAAA
7419400 CAGTGAGTATAAACC
1 CAGTGAGTATAAACC
7419415 CAGTGAGTATAAACC
1 CAGTGAGTATAAACC
7419430 CAGTGAGTA
1 CAGTGAGTA
7419439 AACAAAGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (15 bp):
CAGTGAGTATAAACC
Found at i:7423815 original size:19 final size:20
Alignment explanation
Indices: 7423780--7423818 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
7423770 CTATAAATAT
*
7423780 CTCATTTCTCTAGTAGCTTC
1 CTCATTTCTCCAGTAGCTTC
7423800 CTCATTT-TCCAGTAGCTTC
1 CTCATTTCTCCAGTAGCTTC
7423819 TTGTTCTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.15, C:0.31, G:0.10, T:0.44
Consensus pattern (20 bp):
CTCATTTCTCCAGTAGCTTC
Found at i:7424459 original size:2 final size:2
Alignment explanation
Indices: 7424452--7424489 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
7424442 TATTATGTTG
7424452 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GA- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
7424490 TGTGCATTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 32 0.94
3 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7424556 original size:37 final size:37
Alignment explanation
Indices: 7424514--7424669 Score: 233
Period size: 37 Copynumber: 4.2 Consensus size: 37
7424504 TAATGGTTTG
7424514 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
* *
7424551 TGATGATGTCGAAGTGTGCGAGTAGAGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
* *
7424588 TGATGATGTT-AGAGTGTGCAAGGAGGGAGTGCACACA
1 TGATGATGTTGA-AGTGTGCGAGTAGGGAGTGCACACA
* * *
7424625 TGATGATGTTGACGTGTGTGAGTAGGAAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
7424662 TGATGATG
1 TGATGATG
7424670 ATATTGCATT
Statistics
Matches: 106, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
36 1 0.01
37 104 0.98
38 1 0.01
ACGTcount: A:0.28, C:0.11, G:0.37, T:0.24
Consensus pattern (37 bp):
TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
Found at i:7424984 original size:22 final size:22
Alignment explanation
Indices: 7424956--7425032 Score: 65
Period size: 22 Copynumber: 3.7 Consensus size: 22
7424946 CCAGCCCTGT
7424956 TTCTTGCTGCAGCGAAAAAGAA
1 TTCTTGCTGCAGCGAAAAAGAA
* *
7424978 TTCTTGCTGTAGCG---AGGAA
1 TTCTTGCTGCAGCGAAAAAGAA
** *
7424997 TT-TCACTGCAGC-AAAAATGGA
1 TTCTTGCTGCAGCGAAAAA-GAA
7425018 TTCTTGCTGCAGCGA
1 TTCTTGCTGCAGCGA
7425033 GAAACTCTCG
Statistics
Matches: 40, Mismatches: 9, Indels: 11
0.67 0.15 0.18
Matches are distributed among these distances:
18 7 0.17
19 6 0.15
20 1 0.03
21 4 0.10
22 21 0.52
23 1 0.03
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (22 bp):
TTCTTGCTGCAGCGAAAAAGAA
Found at i:7426828 original size:18 final size:20
Alignment explanation
Indices: 7426805--7426845 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
7426795 CAAATGTTTG
*
7426805 AAAAATG-AAACTCCAA-AA
1 AAAAATGTAAACTACAAGAA
7426823 AAAAATGTAAACTACAAGAA
1 AAAAATGTAAACTACAAGAA
7426843 AAA
1 AAA
7426846 TTATGCTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 8 0.40
20 5 0.25
ACGTcount: A:0.68, C:0.12, G:0.07, T:0.12
Consensus pattern (20 bp):
AAAAATGTAAACTACAAGAA
Found at i:7426846 original size:18 final size:18
Alignment explanation
Indices: 7426804--7426846 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
7426794 TCAAATGTTT
*
7426804 GAAAAATGAAACTCCAAA
1 GAAAAATGAAACTACAAA
*
7426822 AAAAAATGTAAACTAC-AA
1 GAAAAATG-AAACTACAAA
7426840 GAAAAAT
1 GAAAAAT
7426847 TATGCTAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.65, C:0.12, G:0.09, T:0.14
Consensus pattern (18 bp):
GAAAAATGAAACTACAAA
Found at i:7429568 original size:17 final size:17
Alignment explanation
Indices: 7429546--7429582 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
7429536 AAGTGAGGAT
7429546 TGCTCCCCC-TAAGTGTG
1 TGCTCCCCCTTAA-TGTG
7429563 TGCTCCCCCTTAATGTG
1 TGCTCCCCCTTAATGTG
7429580 TGC
1 TGC
7429583 ATATTTAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.11, C:0.35, G:0.22, T:0.32
Consensus pattern (17 bp):
TGCTCCCCCTTAATGTG
Found at i:7437030 original size:26 final size:26
Alignment explanation
Indices: 7437001--7437057 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
7436991 AACTTGAGAA
7437001 GTCCCTTCATGGATTATTCTAAGTTT
1 GTCCCTTCATGGATTATTCTAAGTTT
7437027 GTCCCTTCATGGATTATTCTAAGTTT
1 GTCCCTTCATGGATTATTCTAAGTTT
7437053 GTCCC
1 GTCCC
7437058 ACACTTGCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.44
Consensus pattern (26 bp):
GTCCCTTCATGGATTATTCTAAGTTT
Found at i:7443637 original size:81 final size:71
Alignment explanation
Indices: 7443549--7443700 Score: 205
Period size: 81 Copynumber: 2.0 Consensus size: 71
7443539 GCACTTGTCT
*
7443549 TTATGAAAAACTTGATAATTCATTCAAATGGGTGGCAATTACATTATATTTCCCAAAACAAGTTT
1 TTATGAAAAACTTGATAATTCATTCAAATGGGTGGCAAATACATTATATTTCCCAAAACAAGTTT
7443614 TGAAGG
66 TGAAGG
7443620 NNNNNNNNNNTTATGAAAAACTTGATAATTCATTCAAATGGGTGGCAAATACATTATATTTCCCA
1 ----------TTATGAAAAACTTGATAATTCATTCAAATGGGTGGCAAATACATTATATTTCCCA
7443685 AAACAAGTTTTGAAGG
56 AAACAAGTTTTGAAGG
7443701 CAGTCCACTC
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.31
Consensus pattern (71 bp):
TTATGAAAAACTTGATAATTCATTCAAATGGGTGGCAAATACATTATATTTCCCAAAACAAGTTT
TGAAGG
Found at i:7453634 original size:2 final size:2
Alignment explanation
Indices: 7453627--7453666 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
7453617 GGGACCACTA
7453627 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7453667 CAACATCTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7455707 original size:17 final size:18
Alignment explanation
Indices: 7455687--7455733 Score: 87
Period size: 17 Copynumber: 2.7 Consensus size: 18
7455677 TGTATTTCAG
7455687 TTTTTCTAGTATATCTA-
1 TTTTTCTAGTATATCTAT
7455704 TTTTTCTAGTATATCTAT
1 TTTTTCTAGTATATCTAT
7455722 TTTTTCTAGTAT
1 TTTTTCTAGTAT
7455734 TTCAGCGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 17 0.59
18 12 0.41
ACGTcount: A:0.21, C:0.11, G:0.06, T:0.62
Consensus pattern (18 bp):
TTTTTCTAGTATATCTAT
Found at i:7456223 original size:40 final size:40
Alignment explanation
Indices: 7456168--7456348 Score: 198
Period size: 38 Copynumber: 4.6 Consensus size: 40
7456158 ACCCAGCTCA
*
7456168 TGTGCATCCCCCCACATCGTGCACATAGTCGAAGTTATTG
1 TGTGCATCCCCCCACATCGTGCACATAGTCGAAGTCATTG
* *
7456208 TGTGCATCCCCCCACATCGTG--CATAGT--TAGTGCCATCG
1 TGTGCATCCCCCCACATCGTGCACATAGTCGAAGT--CATTG
* *
7456246 TGTACATCCCCCCACATCGTGCACATAGTCGGAGTCATTG
1 TGTGCATCCCCCCACATCGTGCACATAGTCGAAGTCATTG
*
7456286 TGTGCATCCCCCCACATCGTG--CATAGTC--AGTGCCATCG
1 TGTGCATCCCCCCACATCGTGCACATAGTCGAAGT--CATTG
* *
7456324 TGTACATCCCCCCACATCGTACACA
1 TGTGCATCCCCCCACATCGTGCACA
7456349 CGGGCACTAT
Statistics
Matches: 121, Mismatches: 10, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
36 6 0.05
38 59 0.49
40 53 0.44
42 3 0.02
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.25
Consensus pattern (40 bp):
TGTGCATCCCCCCACATCGTGCACATAGTCGAAGTCATTG
Found at i:7456262 original size:78 final size:78
Alignment explanation
Indices: 7456172--7456348 Score: 318
Period size: 78 Copynumber: 2.3 Consensus size: 78
7456162 AGCTCATGTG
* *
7456172 CATCCCCCCACATCGTGCACATAGTCGAAGTTATTGTGTGCATCCCCCCACATCGTGCATAGTTA
1 CATCCCCCCACATCGTGCACATAGTCGAAGTCATTGTGTGCATCCCCCCACATCGTGCATAGTCA
7456237 GTGCCATCGTGTA
66 GTGCCATCGTGTA
*
7456250 CATCCCCCCACATCGTGCACATAGTCGGAGTCATTGTGTGCATCCCCCCACATCGTGCATAGTCA
1 CATCCCCCCACATCGTGCACATAGTCGAAGTCATTGTGTGCATCCCCCCACATCGTGCATAGTCA
7456315 GTGCCATCGTGTA
66 GTGCCATCGTGTA
*
7456328 CATCCCCCCACATCGTACACA
1 CATCCCCCCACATCGTGCACA
7456349 CGGGCACTAT
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 95 1.00
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.24
Consensus pattern (78 bp):
CATCCCCCCACATCGTGCACATAGTCGAAGTCATTGTGTGCATCCCCCCACATCGTGCATAGTCA
GTGCCATCGTGTA
Found at i:7482687 original size:43 final size:43
Alignment explanation
Indices: 7482626--7482795 Score: 234
Period size: 43 Copynumber: 4.0 Consensus size: 43
7482616 CCCACCACAC
*
7482626 TCAGCTCATGTGCACTCCCTAC-TCGCAGATAGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCC-ACATCGCACATAGCTGGGTCATCA
*
7482669 TCAGCTCATGTGCACTCCCACATCGCACATAGCTAGGTCATCA
1 TCAGCTCATGTGCACTCCCACATCGCACATAGCTGGGTCATCA
* *
7482712 TCAGCTCATGTGCACTCCCACACCGCACATAGCGGGGTCATCA
1 TCAGCTCATGTGCACTCCCACATCGCACATAGCTGGGTCATCA
* * * ** *
7482755 TTAGCTCATGTCCACTCCCACACCATACATAGTTGGGTCAT
1 TCAGCTCATGTGCACTCCCACATCGCACATAGCTGGGTCAT
7482796 TATGATCACA
Statistics
Matches: 115, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
42 2 0.02
43 113 0.98
ACGTcount: A:0.24, C:0.34, G:0.18, T:0.24
Consensus pattern (43 bp):
TCAGCTCATGTGCACTCCCACATCGCACATAGCTGGGTCATCA
Found at i:7484602 original size:36 final size:36
Alignment explanation
Indices: 7484545--7484658 Score: 165
Period size: 36 Copynumber: 3.2 Consensus size: 36
7484535 GGTACTACAT
* * * *
7484545 ACATGATGATATTTGCCATGTGCAGTGTGGGAGTGA
1 ACATGATGATATTAGCTATGTGCGGTGTGGGAGTGC
*
7484581 ACATGATGGTATTAGCTATGTGCGGTGTGGGAGTGC
1 ACATGATGATATTAGCTATGTGCGGTGTGGGAGTGC
* *
7484617 ACATGATGATTTTAGCTATGTGTGGTGTGGGAGTGC
1 ACATGATGATATTAGCTATGTGCGGTGTGGGAGTGC
7484653 ACATGA
1 ACATGA
7484659 GCTGGTGAGT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 70 1.00
ACGTcount: A:0.23, C:0.11, G:0.35, T:0.32
Consensus pattern (36 bp):
ACATGATGATATTAGCTATGTGCGGTGTGGGAGTGC
Found at i:7484811 original size:22 final size:22
Alignment explanation
Indices: 7484768--7484811 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7484758 AATGCTTCCA
* *
7484768 TATGGATTTTCGTTGCAGCAAG
1 TATGGATTTTCATTGCAACAAG
*
7484790 TATGGATTTTCATTGTAACAAG
1 TATGGATTTTCATTGCAACAAG
7484812 AATTCTTCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (22 bp):
TATGGATTTTCATTGCAACAAG
Found at i:7489322 original size:21 final size:21
Alignment explanation
Indices: 7489280--7489319 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7489270 AATTAATTAA
*
7489280 TTTAAATTAATTATATTCAAT
1 TTTAAATTAACTATATTCAAT
7489301 TTTAAATTAACTA-ATTCAA
1 TTTAAATTAACTATATTCAA
7489320 ATTCATAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTAAATTAACTATATTCAAT
Found at i:7504636 original size:43 final size:43
Alignment explanation
Indices: 7504507--7504642 Score: 191
Period size: 43 Copynumber: 3.2 Consensus size: 43
7504497 TGCAATATCA
** *
7504507 TCATCATCAACTCATGTGCACTCCCACATTGCACATAGCTAGG
1 TCATCATCAACTCATGTGCACTCCCACACCGCACATAGCTGGG
* * *
7504550 TCATCATCAGCTCGTGTCCACTCCCACACCGCACATAGCTGGG
1 TCATCATCAACTCATGTGCACTCCCACACCGCACATAGCTGGG
* *
7504593 TCATCATCATCTCATGTGCACTCCCACACCGCACATAGTTGGG
1 TCATCATCAACTCATGTGCACTCCCACACCGCACATAGCTGGG
*
7504636 TCCTCAT
1 TCATCAT
7504643 TATCACACAA
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 82 1.00
ACGTcount: A:0.24, C:0.36, G:0.15, T:0.25
Consensus pattern (43 bp):
TCATCATCAACTCATGTGCACTCCCACACCGCACATAGCTGGG
Found at i:7516065 original size:13 final size:13
Alignment explanation
Indices: 7516047--7516071 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7516037 TTTCAGAAAA
7516047 TTTATAAAATCAT
1 TTTATAAAATCAT
7516060 TTTATAAAATCA
1 TTTATAAAATCA
7516072 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:7517250 original size:27 final size:27
Alignment explanation
Indices: 7517199--7517250 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
7517189 ATGTCCTGGT
*
7517199 GGTGGAAAATTACAATTTTGCCCCTAG
1 GGTGGAAAATTACAATTTTGACCCTAG
7517226 GGTGGCAAAATTATC-ATTTT-ACCCT
1 GGTGG-AAAATTA-CAATTTTGACCCT
7517251 TTTACTCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
27 9 0.41
28 12 0.55
29 1 0.05
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTGACCCTAG
Found at i:7524108 original size:23 final size:23
Alignment explanation
Indices: 7524078--7524137 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
7524068 GATACGTATA
* * *
7524078 CCCATCATTATCATGCACATCAT
1 CCCATCATCATCATACACACCAT
7524101 CCCATCATCATCATACACACCAT
1 CCCATCATCATCATACACACCAT
*
7524124 CACATCATCATCAT
1 CCCATCATCATCAT
7524138 CACCAGCTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.33, C:0.38, G:0.02, T:0.27
Consensus pattern (23 bp):
CCCATCATCATCATACACACCAT
Found at i:7528255 original size:19 final size:18
Alignment explanation
Indices: 7528220--7528255 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
7528210 TGACTGATGC
*
7528220 CATGCTGATATTGATTTA
1 CATGCTGATAATGATTTA
7528238 CATGCTGATAAATGATTT
1 CATGCTGAT-AATGATTT
7528256 TTGTTATGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.42
Consensus pattern (18 bp):
CATGCTGATAATGATTTA
Found at i:7531674 original size:14 final size:14
Alignment explanation
Indices: 7531651--7531691 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
7531641 AATTCCACCC
*
7531651 GAGAGTAAGAAAAA
1 GAGAGAAAGAAAAA
7531665 GAGAGAAAGAAAAA
1 GAGAGAAAGAAAAA
*
7531679 GAAAAGAAAGAAA
1 G-AGAGAAAGAAA
7531692 GAGAAAGGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (14 bp):
GAGAGAAAGAAAAA
Found at i:7531685 original size:19 final size:19
Alignment explanation
Indices: 7531661--7531698 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7531651 GAGAGTAAGA
*
7531661 AAAAGAGAGAAAGAAAAAG
1 AAAAGAAAGAAAGAAAAAG
*
7531680 AAAAGAAAGAAAGAGAAAG
1 AAAAGAAAGAAAGAAAAAG
7531699 GGGAAGGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (19 bp):
AAAAGAAAGAAAGAAAAAG
Found at i:7531686 original size:15 final size:15
Alignment explanation
Indices: 7531657--7531697 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
7531647 ACCCGAGAGT
*
7531657 AAGAAAAAG-AGAGA
1 AAGAAAAAGAAAAGA
7531671 AAGAAAAAGAAAAGA
1 AAGAAAAAGAAAAGA
*
7531686 AAGAAAGAGAAA
1 AAGAAAAAGAAA
7531698 GGGGAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AAGAAAAAGAAAAGA
Found at i:7544067 original size:42 final size:42
Alignment explanation
Indices: 7544008--7544229 Score: 293
Period size: 42 Copynumber: 5.1 Consensus size: 42
7543998 TTATGTGATA
* * *
7544008 ATGATGACCCAGTTATGTGCGTGTGGGAATGCACATGAGTTG
1 ATGATGACCCAGCTATGTGCGTGTGGGAGTGCACATGAGCTG
*
7544050 ATGATGACCCAGATATGTGCGTGTGGGAGTGCACATGAGCTGAGCTG
1 ATGATGACCCAGCTATGTGCGTGTGGGAGTGCAC---A--TGAGCTG
* *
7544097 ATGATGACCCAGCTATATGCGTGAGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGTGTGGGAGTGCACATGAGCTG
* *
7544139 ATGATGACCTAGCTATGTACG-GTGTGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGTGTG-GGAGTGCACATGAGCTG
*
7544181 ATGATGACCCAGCTATGTGCGAGTGTGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGTGTG-GGAGTGCACATGAGCTG
7544224 ATGATG
1 ATGATG
7544230 GTGGGATGGT
Statistics
Matches: 161, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
41 2 0.01
42 93 0.58
43 27 0.17
44 1 0.01
45 1 0.01
47 37 0.23
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (42 bp):
ATGATGACCCAGCTATGTGCGTGTGGGAGTGCACATGAGCTG
Found at i:7544118 original size:89 final size:84
Alignment explanation
Indices: 7544008--7544229 Score: 293
Period size: 89 Copynumber: 2.6 Consensus size: 84
7543998 TTATGTGATA
* * * *
7544008 ATGATGACCCAGTTATGTGCGTGTGGGAATGCACATGAGTTGATGATGACCCAGATATGTGC-GT
1 ATGATGACCCAGCTATGTGCGTGTGGGAGTGCACATGAGCTGATGATGACCCAGATATGTACGGT
7544072 GTGGGAGTGCACATGAGCTGAGCTG
66 GT-GGAGTGCAC---A--TGAGCTG
* * * *
7544097 ATGATGACCCAGCTATATGCGTGAGGGAGTGCACATGAGCTGATGATGACCTAGCTATGTACGGT
1 ATGATGACCCAGCTATGTGCGTGTGGGAGTGCACATGAGCTGATGATGACCCAGATATGTACGGT
7544162 GTGGAGTGCACATGAGCTG
66 GTGGAGTGCACATGAGCTG
*
7544181 ATGATGACCCAGCTATGTGCGAGTGTGGAGTGCACATGAGCTGATGATG
1 ATGATGACCCAGCTATGTGCGTGTG-GGAGTGCACATGAGCTGATGATG
7544230 GTGGGATGGT
Statistics
Matches: 120, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
84 29 0.24
85 23 0.19
86 1 0.01
89 63 0.52
90 4 0.03
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (84 bp):
ATGATGACCCAGCTATGTGCGTGTGGGAGTGCACATGAGCTGATGATGACCCAGATATGTACGGT
GTGGAGTGCACATGAGCTG
Found at i:7544743 original size:19 final size:19
Alignment explanation
Indices: 7544719--7544758 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
7544709 GGGTTTTAAA
7544719 GAGAAACCCTCGGCCAGTT
1 GAGAAACCCTCGGCCAGTT
*
7544738 GAGAAACCCTCGTCCAGTT
1 GAGAAACCCTCGGCCAGTT
7544757 GA
1 GA
7544759 TAATTTGAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.30, G:0.25, T:0.17
Consensus pattern (19 bp):
GAGAAACCCTCGGCCAGTT
Found at i:7558649 original size:2 final size:2
Alignment explanation
Indices: 7558608--7558640 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7558598 TTTTTGTAGA
7558608 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7558641 CACATATATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7559074 original size:27 final size:27
Alignment explanation
Indices: 7559041--7559100 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 27
7559031 CCACGTTTTG
* *
7559041 TGATATATATGTAGCGAGGCCACGAGT
1 TGATATATACGTAGCGAGGCCACAAGT
* *
7559068 TG--ATATACGTGGCTAGGCCACAAGT
1 TGATATATACGTAGCGAGGCCACAAGT
7559093 TGATATAT
1 TGATATAT
7559101 GTGGTTGCGA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
25 21 0.78
27 6 0.22
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (27 bp):
TGATATATACGTAGCGAGGCCACAAGT
Found at i:7559085 original size:25 final size:25
Alignment explanation
Indices: 7559057--7559104 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
7559047 ATATGTAGCG
*
7559057 AGGCCACGAGTTGATATACGTGGCT
1 AGGCCACAAGTTGATATACGTGGCT
*
7559082 AGGCCACAAGTTGATATATGTGG
1 AGGCCACAAGTTGATATACGTGG
7559105 TTGCGACCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (25 bp):
AGGCCACAAGTTGATATACGTGGCT
Found at i:7561028 original size:20 final size:20
Alignment explanation
Indices: 7560983--7561020 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
7560973 TTTTGGCCCC
7560983 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
7561003 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
7561021 AGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:7563953 original size:179 final size:179
Alignment explanation
Indices: 7563643--7564004 Score: 652
Period size: 179 Copynumber: 2.0 Consensus size: 179
7563633 ATTCTTAAGC
* *
7563643 CATTGGAAAGATAAGAGACGGAGCTACAACTTTGTTGTAGATTACTTTGTCTAATTATGCCTTGA
1 CATTAGAAACATAAGAGACGGAGCTACAACTTTGTTGTAGATTACTTTGTCTAATTATGCCTTGA
* *
7563708 ATGCTGAAAAACTTACGTTGGAAGATAATTGAGTGTAATGTTACCGAAATGGAAATTTGAAGGAT
66 ATGCTGAAAAAATTACGTTGGAAGATAATTGAGTGTAATGCTACCGAAATGGAAATTTGAAGGAT
*
7563773 GATATTTGATGTTTGGGCTTCATAAAACTTCTCAGTCCATAAGTTGAGT
131 GATATTTGATGTTTGGGCCTCATAAAACTTCTCAGTCCATAAGTTGAGT
7563822 CATTAGAAACATAAGAGACGGAGCTACAACTTTGTTGTAGATTACTTTGTCTAATTATGCCTTGA
1 CATTAGAAACATAAGAGACGGAGCTACAACTTTGTTGTAGATTACTTTGTCTAATTATGCCTTGA
*
7563887 ATGCTGAAAAAATTACGTTGGAAGATAATTGAGTGTAATGCTACCGAAATGGCAATTTGAAGGAT
66 ATGCTGAAAAAATTACGTTGGAAGATAATTGAGTGTAATGCTACCGAAATGGAAATTTGAAGGAT
* *
7563952 GATATTTGATGTTTGGGCCTCATAAAACTTCTCAGTCTATGAGTTGAGT
131 GATATTTGATGTTTGGGCCTCATAAAACTTCTCAGTCCATAAGTTGAGT
7564001 CATT
1 CATT
7564005 GGGCGAAACT
Statistics
Matches: 175, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
179 175 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.33
Consensus pattern (179 bp):
CATTAGAAACATAAGAGACGGAGCTACAACTTTGTTGTAGATTACTTTGTCTAATTATGCCTTGA
ATGCTGAAAAAATTACGTTGGAAGATAATTGAGTGTAATGCTACCGAAATGGAAATTTGAAGGAT
GATATTTGATGTTTGGGCCTCATAAAACTTCTCAGTCCATAAGTTGAGT
Found at i:7568071 original size:61 final size:61
Alignment explanation
Indices: 7567970--7568090 Score: 197
Period size: 61 Copynumber: 2.0 Consensus size: 61
7567960 AATCTCAATT
*
7567970 ACAAGACAGAGAGAACTTAATCAACTAAGAAGCACAGTTAGTCAACTAAAAGCTCACTACC
1 ACAAGACAGAGAAAACTTAATCAACTAAGAAGCACAGTTAGTCAACTAAAAGCTCACTACC
* ** *
7568031 ACAAGACAGAGAAAACTTAATCGACTAAGAAGCATGGTTAGTCAACTAAGAGCTCACTAC
1 ACAAGACAGAGAAAACTTAATCAACTAAGAAGCACAGTTAGTCAACTAAAAGCTCACTAC
7568091 AAGAAATTTC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.17
Consensus pattern (61 bp):
ACAAGACAGAGAAAACTTAATCAACTAAGAAGCACAGTTAGTCAACTAAAAGCTCACTACC
Found at i:7568152 original size:135 final size:135
Alignment explanation
Indices: 7567910--7568153 Score: 341
Period size: 135 Copynumber: 1.8 Consensus size: 135
7567900 GATAGAAAAG
* * *
7567910 ACTTAATCGACCAAGAAGTATGGTTAGTCAACTAAAAGCACACTGCCAACAATCTCAATTACAAG
1 ACTTAATCGACCAAGAAGCATGGTTAGTCAACTAAAAGCACACTGACAAAAATCTCAATTACAAG
7567975 ACAGAGAGAACTTAATCAACTAAGAAGCACAGTTAGTCAACTAAAAGCTCACTACCACAAGACAG
66 ACAGAGAGAACTTAATCAACTAAGAAGCACAGTTAGTCAACTAAAAGCTCACTACCACAAGACAG
7568040 AGAAA
131 AGAAA
* * * *
7568045 ACTTAATCGACTAAGAAGCATGGTTAGTCAACTAAGAGCTCACT-ACAAGAAATTTCAAATT-CA
1 ACTTAATCGACCAAGAAGCATGGTTAGTCAACTAAAAGCACACTGACAA-AAATCTC-AATTACA
* * * *
7568108 AGATAGAGA-AGACTTGATCGACTAAGAAGCATAGTTAGTCAACTAA
64 AGACAGAGAGA-ACTTAATCAACTAAGAAGCACAGTTAGTCAACTAA
7568154 GAGCACTCTA
Statistics
Matches: 95, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
134 4 0.04
135 87 0.92
136 4 0.04
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.20
Consensus pattern (135 bp):
ACTTAATCGACCAAGAAGCATGGTTAGTCAACTAAAAGCACACTGACAAAAATCTCAATTACAAG
ACAGAGAGAACTTAATCAACTAAGAAGCACAGTTAGTCAACTAAAAGCTCACTACCACAAGACAG
AGAAA
Found at i:7576097 original size:20 final size:20
Alignment explanation
Indices: 7576060--7576098 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7576050 AAAATCAAGA
*
7576060 TTTTCATTTTCTTTTCCTTG
1 TTTTCATTTTCTTCTCCTTG
7576080 TTTTCA-TTTCTTACTCCTT
1 TTTTCATTTTCTT-CTCCTT
7576099 CCTTCTCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTTCATTTTCTTCTCCTTG
Found at i:7577086 original size:55 final size:54
Alignment explanation
Indices: 7577006--7577166 Score: 187
Period size: 55 Copynumber: 2.9 Consensus size: 54
7576996 TGATGACAGG
* * * *
7577006 TGATTCCAGTTATGTGCAATATGGGAGTGAACATGAGCTGATGACCGGTGGGTGA
1 TGATTCCAGCTATGTG-AATGTGGGAGTGCACATGAGCTGATGACCGGTGGATGA
* * * *
7577061 TGATTCCAGCTATGTGTGATGTGGGAGTGCACATGAGTTGATGATCGGAGGATGA
1 TGATTCCAGCTATGTG-AATGTGGGAGTGCACATGAGCTGATGACCGGTGGATGA
* * * *
7577116 CGATTCCAGCTATGTGCAGTGTGGGAGTGCACATGAGCAGATGACCAGTGG
1 TGATTCCAGCTATGTG-AATGTGGGAGTGCACATGAGCTGATGACCGGTGG
7577167 TTGCATACAT
Statistics
Matches: 88, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.35, T:0.26
Consensus pattern (54 bp):
TGATTCCAGCTATGTGAATGTGGGAGTGCACATGAGCTGATGACCGGTGGATGA
Found at i:7583944 original size:55 final size:55
Alignment explanation
Indices: 7583874--7584034 Score: 160
Period size: 55 Copynumber: 2.9 Consensus size: 55
7583864 TGATGACGGG
* * * * *
7583874 TGATTCCAGCAATGTACGATATGGGAGTGCATATGAGCTGATGACTGGTGGGTGA
1 TGATTCCAGCTATGTACGATGTGGGAGTGCATATGAGCTGATGACCGGTGGATAA
* **** * *
7583929 TGATTTCAGCTATGTACGATGCAATAGTGCATATTAGCTGATGACCGGAGGATAA
1 TGATTCCAGCTATGTACGATGTGGGAGTGCATATGAGCTGATGACCGGTGGATAA
* * * * * *
7583984 CGATTCCAACTATGTGCGGTGTGGGAGTGCACATGAGTTGATGACCGGTGG
1 TGATTCCAGCTATGTACGATGTGGGAGTGCATATGAGCTGATGACCGGTGG
7584035 TTGCATACAT
Statistics
Matches: 81, Mismatches: 25, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
55 81 1.00
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (55 bp):
TGATTCCAGCTATGTACGATGTGGGAGTGCATATGAGCTGATGACCGGTGGATAA
Found at i:7592753 original size:8 final size:8
Alignment explanation
Indices: 7592717--7592813 Score: 61
Period size: 8 Copynumber: 11.2 Consensus size: 8
7592707 TTGCTTACAA
7592717 AAAAATAT
1 AAAAATAT
*
7592725 ATAATAACAT
1 A-AA-AATAT
*
7592735 AATAATAAT
1 AAAAAT-AT
7592744 AAAAATAT
1 AAAAATAT
*
7592752 AAAAATGT
1 AAAAATAT
7592760 AAAAATAAT
1 AAAAAT-AT
*
7592769 AAAATAAAT
1 AAAA-ATAT
7592778 AAATAA-AT
1 AAA-AATAT
*
7592786 AAAAATAA
1 AAAAATAT
7592794 AAAAATCAT
1 AAAAAT-AT
*
7592803 CAAAAAAAT
1 -AAAAATAT
7592812 AA
1 AA
7592814 GTTTTGCAGT
Statistics
Matches: 70, Mismatches: 10, Indels: 18
0.71 0.10 0.18
Matches are distributed among these distances:
7 2 0.03
8 32 0.46
9 24 0.34
10 12 0.17
ACGTcount: A:0.73, C:0.03, G:0.01, T:0.23
Consensus pattern (8 bp):
AAAAATAT
Found at i:7592788 original size:34 final size:34
Alignment explanation
Indices: 7592733--7592813 Score: 87
Period size: 34 Copynumber: 2.4 Consensus size: 34
7592723 ATATAATAAC
**
7592733 ATAATAAT-AATAAAAATATAAAAATGTAAAAATA
1 ATAA-AATAAATAAAAATATAAAAATAAAAAAATA
*
7592767 ATAAAATAAATAAATAA-ATAAAAATAAAAAAATC
1 ATAAAATAAATAAA-AATATAAAAATAAAAAAATA
7592801 ATCAAAA-AAATAA
1 AT-AAAATAAATAA
7592814 GTTTTGCAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 3 0.07
34 32 0.78
35 6 0.15
ACGTcount: A:0.74, C:0.02, G:0.01, T:0.22
Consensus pattern (34 bp):
ATAAAATAAATAAAAATATAAAAATAAAAAAATA
Found at i:7592945 original size:17 final size:17
Alignment explanation
Indices: 7592925--7592995 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 17
7592915 AATAATAAGG
7592925 AATAAAATAGAAAATAT
1 AATAAAATAGAAAATAT
*
7592942 AAT--AATAAAAAATAT
1 AATAAAATAGAAAATAT
*
7592957 AATGAAAT-GAAAATAAT
1 AATAAAATAGAAAAT-AT
* *
7592974 AATTAAATA-ATAATA-
1 AATAAAATAGAAAATAT
7592989 AATAAAA
1 AATAAAA
7592996 AAAATAGACA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
15 20 0.44
16 6 0.13
17 19 0.42
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.25
Consensus pattern (17 bp):
AATAAAATAGAAAATAT
Found at i:7593059 original size:18 final size:18
Alignment explanation
Indices: 7593021--7593065 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
7593011 ATTAGCATAG
*
7593021 CATGTATATATATTGCGT
1 CATGTATATATATTGCAT
*
7593039 CATGTATATATATTGTAT
1 CATGTATATATATTGCAT
*
7593057 CATGCATAT
1 CATGTATAT
7593066 CATTGCATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.44
Consensus pattern (18 bp):
CATGTATATATATTGCAT
Found at i:7593414 original size:15 final size:15
Alignment explanation
Indices: 7593394--7593429 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
7593384 AGGTTATTCG
7593394 TCCGACATATTTTTA
1 TCCGACATATTTTTA
7593409 TCCGACATATTTTTA
1 TCCGACATATTTTTA
7593424 TCCGAC
1 TCCGAC
7593430 GCCATGCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.42
Consensus pattern (15 bp):
TCCGACATATTTTTA
Found at i:7601134 original size:2 final size:2
Alignment explanation
Indices: 7601127--7601178 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
7601117 CATTATGTTG
7601127 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7601169 AT AT AT AT AT
1 AT AT AT AT AT
7601179 GTTGTGCATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7601396 original size:40 final size:38
Alignment explanation
Indices: 7601295--7601397 Score: 127
Period size: 38 Copynumber: 2.7 Consensus size: 38
7601285 ATAGTGTCTG
* * *
7601295 TGTGCACGATGTGGGGGGATGTACACGATGGCACTAAC
1 TGTGCACGATGTGGGGGGATGCACACGATGACACCAAC
* *
7601333 TGTGCACGATGTGGGGGGATGCACACGATGACTCCGAC
1 TGTGCACGATGTGGGGGGATGCACACGATGACACCAAC
7601371 TATGTGCACGATGTGTGGGGG-TGCACA
1 --TGTGCACGATGTG-GGGGGATGCACA
7601398 TGAGCTGGGT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
38 33 0.58
40 19 0.33
41 5 0.09
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (38 bp):
TGTGCACGATGTGGGGGGATGCACACGATGACACCAAC
Found at i:7601452 original size:2 final size:2
Alignment explanation
Indices: 7601447--7601485 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
7601437 TGTATATAAG
7601447 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7601486 GTTTTTGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7601603 original size:23 final size:23
Alignment explanation
Indices: 7601577--7601620 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
7601567 CATTTTCTTG
* *
7601577 CAAATTGATTTTTATTGCAAAAC
1 CAAATGGATTTTTAGTGCAAAAC
7601600 CAAATGGATTTTTAGTGCAAA
1 CAAATGGATTTTTAGTGCAAA
7601621 TGAGGTCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (23 bp):
CAAATGGATTTTTAGTGCAAAAC
Found at i:7606110 original size:61 final size:61
Alignment explanation
Indices: 7606009--7606128 Score: 179
Period size: 61 Copynumber: 2.0 Consensus size: 61
7605999 AATCTCAATT
* *
7606009 ACAAGACAGAAAGAACTTAATCGGCTAAGAAGCACAGTTAGTCAACTAAGAGCTCACTGCC
1 ACAAAACAGAAAGAACTTAATCGACTAAGAAGCACAGTTAGTCAACTAAGAGCTCACTGCC
* * *
7606070 ACAAAACAGAGAA-AACTTAATTGACTAAGAAGCACGGTTAGTCGACTAAGAGCTCACTG
1 ACAAAACAGA-AAGAACTTAATCGACTAAGAAGCACAGTTAGTCAACTAAGAGCTCACTG
7606129 TCAAAAATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
61 51 0.96
62 2 0.04
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.17
Consensus pattern (61 bp):
ACAAAACAGAAAGAACTTAATCGACTAAGAAGCACAGTTAGTCAACTAAGAGCTCACTGCC
Found at i:7608167 original size:20 final size:20
Alignment explanation
Indices: 7608130--7608167 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7608120 ACTATTCTTC
*
7608130 AAGTAAATTAAAGGAAAATA
1 AAGTAAATTAAAGCAAAATA
7608150 AAGTAAAATTAAA-CAAAA
1 AAGT-AAATTAAAGCAAAA
7608168 CCTAACTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.68, C:0.03, G:0.11, T:0.18
Consensus pattern (20 bp):
AAGTAAATTAAAGCAAAATA
Found at i:7611685 original size:42 final size:42
Alignment explanation
Indices: 7611638--7611782 Score: 159
Period size: 42 Copynumber: 3.5 Consensus size: 42
7611628 AGCTCATATG
* * **
7611638 CACTCCCACTAGCACATGGCTAG-GTCAGCATCGGCTTATTTA
1 CACTCCCACTCGCACATAGC-AGAGTCAGCATCGGCTTATGCA
* *
7611680 CACTCCTACTCGCACATAGCCGAGTCAGCATCGGCTTATGCA
1 CACTCCCACTCGCACATAGCAGAGTCAGCATCGGCTTATGCA
* * * *
7611722 CACTCCCACTCGCACATAATC-GGGTCAACATCGGCTTATGCG
1 CACTCCCACTCGCACAT-AGCAGAGTCAGCATCGGCTTATGCA
*
7611764 CACTCCTACTCGCACATAG
1 CACTCCCACTCGCACATAG
7611783 TCGGGTCAAT
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
41 2 0.02
42 84 0.95
43 2 0.02
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.23
Consensus pattern (42 bp):
CACTCCCACTCGCACATAGCAGAGTCAGCATCGGCTTATGCA
Found at i:7611787 original size:42 final size:42
Alignment explanation
Indices: 7611660--7611791 Score: 183
Period size: 42 Copynumber: 3.1 Consensus size: 42
7611650 CACATGGCTA
* ** *
7611660 GGTCAGCATCGGCTTATTTACACTCCTACTCGCACATAGCCG
1 GGTCAACATCGGCTTATGCACACTCCTACTCGCACATAGTCG
* * * *
7611702 AGTCAGCATCGGCTTATGCACACTCCCACTCGCACATAATCG
1 GGTCAACATCGGCTTATGCACACTCCTACTCGCACATAGTCG
*
7611744 GGTCAACATCGGCTTATGCGCACTCCTACTCGCACATAGTCG
1 GGTCAACATCGGCTTATGCACACTCCTACTCGCACATAGTCG
7611786 GGTCAA
1 GGTCAA
7611792 TATCATTACA
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 79 1.00
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.23
Consensus pattern (42 bp):
GGTCAACATCGGCTTATGCACACTCCTACTCGCACATAGTCG
Found at i:7614053 original size:21 final size:21
Alignment explanation
Indices: 7614027--7614074 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
7614017 TTGAACTATG
* * *
7614027 GTTTTATTTCTTTTGAGTTAT
1 GTTTTATCTATTTTCAGTTAT
*
7614048 GTTTTATCTATTTTCATTTAT
1 GTTTTATCTATTTTCAGTTAT
7614069 GTTTTA
1 GTTTTA
7614075 AGGTTTTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.06, G:0.10, T:0.67
Consensus pattern (21 bp):
GTTTTATCTATTTTCAGTTAT
Found at i:7615461 original size:32 final size:32
Alignment explanation
Indices: 7615425--7615573 Score: 140
Period size: 35 Copynumber: 4.5 Consensus size: 32
7615415 TTTACCGGGA
*
7615425 TCAACCAAAACCCAAAGTGATTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
* *
7615457 TCAACCACAACCTTTCACAA-TGGTTTTTC-ATGAGC
1 TCAACCAAAACC---CA-AAGTGGTTTTTCAAAG-GC
7615492 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
* * ** *
7615524 TCAACCACAACCTACAATAATGGTTTTTCACGGGA
1 TCAACCAAAACC--CAA-AGTGGTTTTTCAAAGGC
7615559 TCAACCAAAACCCAA
1 TCAACCAAAACCCAA
7615574 CACCTAACTT
Statistics
Matches: 96, Mismatches: 11, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
31 2 0.02
32 35 0.36
33 5 0.05
34 5 0.05
35 47 0.49
36 2 0.02
ACGTcount: A:0.37, C:0.28, G:0.12, T:0.23
Consensus pattern (32 bp):
TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
Found at i:7615486 original size:35 final size:32
Alignment explanation
Indices: 7615425--7615553 Score: 120
Period size: 32 Copynumber: 3.8 Consensus size: 32
7615415 TTTACCGGGA
* *
7615425 TCAACCAAAACC-CAAAGTGATTTTTCAAAGGC
1 TCAACCACAACCTCAAA-TGGTTTTTCAAAGGC
*
7615457 TCAACCACAACCTTTCACAATGGTTTTTC-ATGAGC
1 TCAACCACAACC--TCA-AATGGTTTTTCAAAG-GC
*
7615492 TCAACCAAAACC-CAAAGTGGTTTTTCAAAGGC
1 TCAACCACAACCTCAAA-TGGTTTTTCAAAGGC
7615524 TCAACCACAACCTACAATAATGGTTTTTCA
1 TCAACCACAACCT-C-A-AATGGTTTTTCA
7615554 CGGGATCAAC
Statistics
Matches: 80, Mismatches: 6, Indels: 19
0.76 0.06 0.18
Matches are distributed among these distances:
31 2 0.03
32 35 0.44
33 2 0.03
34 3 0.04
35 34 0.43
36 4 0.05
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.26
Consensus pattern (32 bp):
TCAACCACAACCTCAAATGGTTTTTCAAAGGC
Found at i:7615506 original size:67 final size:67
Alignment explanation
Indices: 7615423--7615573 Score: 232
Period size: 67 Copynumber: 2.3 Consensus size: 67
7615413 TTTTTACCGG
*
7615423 GATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACCACAACCTTTC-ACAATGGTTTTTCA
1 GATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACCACAACC-TACAACAATGGTTTTTCA
*
7615487 TGA
65 CGA
* * *
7615490 GCTCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACCTACAATAATGGTTTTTCAC
1 GATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACCACAACCTACAACAATGGTTTTTCAC
*
7615555 GG
66 GA
7615557 GATCAACCAAAACCCAA
1 GATCAACCAAAACCCAA
7615574 CACCTAACTT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
66 2 0.03
67 74 0.97
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.23
Consensus pattern (67 bp):
GATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACCACAACCTACAACAATGGTTTTTCAC
GA
Found at i:7616478 original size:17 final size:17
Alignment explanation
Indices: 7616453--7616485 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7616443 TGAGGATTGC
7616453 TCCCCCTTAGTGTGTGT
1 TCCCCCTTAGTGTGTGT
*
7616470 TCCCTCTTAGTGTGTG
1 TCCCCCTTAGTGTGTG
7616486 CATATTTTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.27, G:0.24, T:0.42
Consensus pattern (17 bp):
TCCCCCTTAGTGTGTGT
Found at i:7622654 original size:42 final size:43
Alignment explanation
Indices: 7622578--7622659 Score: 139
Period size: 42 Copynumber: 1.9 Consensus size: 43
7622568 CCACACTCCA
**
7622578 CTCATGTGCACTCCCTACTTGCACATAGCTGGGTCATCATCAG
1 CTCATGTGCACTCCCTACAGGCACATAGCTGGGTCATCATCAG
7622621 CTCATGTGCACTCCC-ACAGGCACATAGCTGGGTCATCAT
1 CTCATGTGCACTCCCTACAGGCACATAGCTGGGTCATCAT
7622660 TATCACACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
42 22 0.59
43 15 0.41
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.26
Consensus pattern (43 bp):
CTCATGTGCACTCCCTACAGGCACATAGCTGGGTCATCATCAG
Found at i:7624752 original size:193 final size:191
Alignment explanation
Indices: 7624419--7624801 Score: 748
Period size: 193 Copynumber: 2.0 Consensus size: 191
7624409 ATTTGAGTTT
7624419 GGGAGTTCTTACCAACCATTCCTATACCATGGATTCTACCTTTTGAATCATCACCAACGGATACG
1 GGGAGTTCTTACCAACCATTCCTATACCATGGATTCTACCTTTTGAATCATCACCAACGGATACG
7624484 GTTCATCCCTTTCTTTTGTCCAGCTTAGCAAATAGCATTTCATCTCCTGTCATGTGCCTTGAACA
66 GTTCATCCCTTTCTTTTGTCCAGCTTAGCAAATAGCATTTCATCTCCTGTCATGTGCCTTGAACA
7624549 ACCACTGTCCATATACCAAGGCTGCCTCTTCTTGAGTTGAGCTCTTGAACATGTATCTTTNG
131 ACCACTGTCCATATACCAAGGCTGCCTCTTCTTGAGTTGAGCTCTTGAACATGTATCTTT-G
7624611 GGGAGGTTCTTACCAACCATTCCTATACCATGGATTCTACCTTTTGAATCATCACCAACGGATAC
1 GGGA-GTTCTTACCAACCATTCCTATACCATGGATTCTACCTTTTGAATCATCACCAACGGATAC
7624676 GGTTCATCCCTTTCTTTTGTCCAGCTTAGCAAATAGCATTTCATCTCCTGTCATGTGCCTTGAAC
65 GGTTCATCCCTTTCTTTTGTCCAGCTTAGCAAATAGCATTTCATCTCCTGTCATGTGCCTTGAAC
7624741 AACCACTGTCCATATACCAAGGCTGCCTCTTCTTGAGTTGAGCTCTTGAACATGTATCTTT
130 AACCACTGTCCATATACCAAGGCTGCCTCTTCTTGAGTTGAGCTCTTGAACATGTATCTTT
7624802 TGAGTGCAGC
Statistics
Matches: 190, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
192 4 0.02
193 186 0.98
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (191 bp):
GGGAGTTCTTACCAACCATTCCTATACCATGGATTCTACCTTTTGAATCATCACCAACGGATACG
GTTCATCCCTTTCTTTTGTCCAGCTTAGCAAATAGCATTTCATCTCCTGTCATGTGCCTTGAACA
ACCACTGTCCATATACCAAGGCTGCCTCTTCTTGAGTTGAGCTCTTGAACATGTATCTTTG
Found at i:7626227 original size:35 final size:35
Alignment explanation
Indices: 7626188--7626431 Score: 199
Period size: 35 Copynumber: 7.2 Consensus size: 35
7626178 CCAAGCTTAG
* *
7626188 CCAAAACCTTTCACAATGGTTTTT-ACTGGGATCAA
1 CCAAAACCTTTCACAATGGTTTTTCA-AGGGCTCAA
**
7626223 CCAAAACC---CA-AAGTGGTTTTTCAAAAGCTCAA
1 CCAAAACCTTTCACAA-TGGTTTTTCAAGGGCTCAA
* *
7626255 CCACAACCTTTCACAATGGTTTTTCATGGGCTCAA
1 CCAAAACCTTTCACAATGGTTTTTCAAGGGCTCAA
* *
7626290 CCAAAACC---CAAAATGGTTTTTCAAAGGCTCAA
1 CCAAAACCTTTCACAATGGTTTTTCAAGGGCTCAA
* * *
7626322 CCACAATCTTTCACAATGGTTTTTCACGGGCTCAA
1 CCAAAACCTTTCACAATGGTTTTTCAAGGGCTCAA
* *
7626357 CCAAAACC---CA-AAGGGGTTTTTCAAAGGCTCAA
1 CCAAAACCTTTCACAA-TGGTTTTTCAAGGGCTCAA
* * * * *
7626389 CCACAACC-TACAACAATGGTTTTTTACGGGATCAA
1 CCAAAACCTTTC-ACAATGGTTTTTCAAGGGCTCAA
7626424 CCAAAACC
1 CCAAAACC
7626432 CAACACCTAA
Statistics
Matches: 166, Mismatches: 29, Indels: 28
0.74 0.13 0.13
Matches are distributed among these distances:
31 4 0.02
32 74 0.45
33 1 0.01
34 1 0.01
35 82 0.49
36 4 0.02
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (35 bp):
CCAAAACCTTTCACAATGGTTTTTCAAGGGCTCAA
Found at i:7626290 original size:67 final size:67
Alignment explanation
Indices: 7626192--7626434 Score: 373
Period size: 67 Copynumber: 3.6 Consensus size: 67
7626182 GCTTAGCCAA
*
7626192 AACCTTTCACAATGGTTTTT-ACTGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAAGCTCAAC
1 AACCTTTCACAATGGTTTTTCAC-GGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAAC
7626256 CAC
65 CAC
* * *
7626259 AACCTTTCACAATGGTTTTTCATGGGCTCAACCAAAACCCAAAATGGTTTTTCAAAGGCTCAACC
1 AACCTTTCACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
7626324 AC
66 AC
* * *
7626326 AATCTTTCACAATGGTTTTTCACGGGCTCAACCAAAACCCAAAGGGGTTTTTCAAAGGCTCAACC
1 AACCTTTCACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
7626391 AC
66 AC
* *
7626393 AACC-TACAACAATGGTTTTTTACGGGATCAACCAAAACCCAA
1 AACCTTTC-ACAATGGTTTTTCACGGGATCAACCAAAACCCAA
7626435 CACCTAACTT
Statistics
Matches: 162, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
66 2 0.01
67 159 0.98
68 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (67 bp):
AACCTTTCACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
AC
Found at i:7644802 original size:17 final size:17
Alignment explanation
Indices: 7644780--7644816 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
7644770 AGCAAAATAT
7644780 GCACACACTAAGGGGGA
1 GCACACACTAAGGGGGA
*
7644797 GCACACACTTAGGGGGA
1 GCACACACTAAGGGGGA
7644814 GCA
1 GCA
7644817 ACCCACACTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.24, G:0.35, T:0.08
Consensus pattern (17 bp):
GCACACACTAAGGGGGA
Found at i:7649187 original size:21 final size:20
Alignment explanation
Indices: 7649163--7649230 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 20
7649153 GAAATAAAGG
7649163 AAAAAGAGAAAAAAAGATAAA
1 AAAAAGAGAAAAAAAGA-AAA
7649184 AAAATTTAGAG-AAAAAAG-AAA
1 AAAA---AGAGAAAAAAAGAAAA
7649205 AAAAAGAGGAAAACAAAGAAAA
1 AAAAAGA-GAAAA-AAAGAAAA
7649227 AAAA
1 AAAA
7649231 GGAAGGACTA
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
18 3 0.08
19 1 0.03
20 3 0.08
21 15 0.38
22 7 0.17
23 7 0.17
24 4 0.10
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.06
Consensus pattern (20 bp):
AAAAAGAGAAAAAAAGAAAA
Found at i:7649209 original size:9 final size:9
Alignment explanation
Indices: 7649143--7649231 Score: 52
Period size: 9 Copynumber: 9.0 Consensus size: 9
7649133 TTTTCATAAA
7649143 AAAAATAAAG
1 AAAAA-AAAG
* *
7649153 GAAATAAAG
1 AAAAAAAAG
* *
7649162 GAAAAAGAG
1 AAAAAAAAG
*
7649171 AAAAAAAGAT
1 AAAAAAA-AG
7649181 AAAAAAATTTAG
1 AAAAAAA---AG
*
7649193 AGAAAAAAG
1 AAAAAAAAG
7649202 AAAAAAAAG
1 AAAAAAAAG
7649211 AGGAAAACAAAG
1 A--AAAA-AAAG
7649223 AAAAAAAAG
1 AAAAAAAAG
7649232 GAAGGACTAA
Statistics
Matches: 62, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
9 31 0.50
10 15 0.24
11 4 0.06
12 12 0.19
ACGTcount: A:0.75, C:0.01, G:0.17, T:0.07
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:7653593 original size:38 final size:40
Alignment explanation
Indices: 7653542--7653644 Score: 140
Period size: 38 Copynumber: 2.6 Consensus size: 40
7653532 ATAGTGCCCG
*
7653542 TGTGCACGATGTGGGGGGATGTACACGAT-G-GCACTGAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGC-CGGATA
* * *
7653580 TGTGCACGATGTGGGGGGATGCACACGCTGGTGCCGGCTA
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGCCGGATA
7653620 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
7653645 TGAACCTGGT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
38 27 0.47
39 4 0.07
40 26 0.46
ACGTcount: A:0.18, C:0.17, G:0.42, T:0.22
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGTGCCGGATA
Found at i:7661878 original size:351 final size:351
Alignment explanation
Indices: 7661235--7661918 Score: 1251
Period size: 351 Copynumber: 1.9 Consensus size: 351
7661225 TCGCTAGGTT
*
7661235 CCTCGAGAACAGGACCATCAAGGACATAAGCCTTTTTCTCTTGTTTCAAGATAATCTTGATATTG
1 CCTCGAGAACAGGACCATCAAGGACATAAGCCTTTTTCTCTTGTTTCAAGACAATCTTGATATTG
* *
7661300 CAAAACCAGTCAATGAAATTTGGCCCTGTCAACTTGTTTGCATCAAGTATGCTTCTAAGTGACAA
66 CAAAACCAGTAAATGAAATTTGGCCCTGTCAACTGGTTTGCATCAAGTATGCTTCTAAGTGACAA
7661365 ACCAATCGCCATGATTGATTTATATAGATTTATATCCTATATAAATCAACATATATAAAACTTAG
131 ACCAATCGCCATGATTGATTTATATAGATTTATATCCTATATAAATCAACATATATAAAACTTAG
*
7661430 TTGTTAACACAAATTATGAAATCATAAAGACAAGGTTATAAAAGCTTATATGATTATTCTCAATA
196 TCGTTAACACAAATTATGAAATCATAAAGACAAGGTTATAAAAGCTTATATGATTATTCTCAATA
7661495 TTTTATCAAAATAATAGCCTTCCTCTAATATTTCGAGAAATTTAACCTTAAAACTTCTTATTGAG
261 TTTTATCAAAATAATAGCCTTCCTCTAATATTTCGAGAAATTTAACCTTAAAACTTCTTATTGAG
7661560 CTAGGACCTTTTTTATCCCACCATGA
326 CTAGGACCTTTTTTATCCCACCATGA
*
7661586 CCTCGAGAACAGGACCATCTAGGACATAAGCCTTTTTCTCTTGTTTCAAGACAATCTTGATATTG
1 CCTCGAGAACAGGACCATCAAGGACATAAGCCTTTTTCTCTTGTTTCAAGACAATCTTGATATTG
* *
7661651 CAAAACTAGTAAATGAAATTTGGCCCTGTCAACTGGTTTGCATCAAGTATGCTTTTAAGTGACAA
66 CAAAACCAGTAAATGAAATTTGGCCCTGTCAACTGGTTTGCATCAAGTATGCTTCTAAGTGACAA
* *
7661716 ACCAATTGCCATGATTGATTTATATAGATTTATATCCTATATAAATCAACATATATAAAGCTTAG
131 ACCAATCGCCATGATTGATTTATATAGATTTATATCCTATATAAATCAACATATATAAAACTTAG
* * *
7661781 TCGTTAACACAAATTATGAAATCATAAAGACAAGTTTATAGAGGCTTATATGATTATTCTCAATA
196 TCGTTAACACAAATTATGAAATCATAAAGACAAGGTTATAAAAGCTTATATGATTATTCTCAATA
*
7661846 TTTTATCAAAATAATAGCCTTCCTCTAATATTTCGAGAAATTTAACCTTTAAACTTCTTATTGAG
261 TTTTATCAAAATAATAGCCTTCCTCTAATATTTCGAGAAATTTAACCTTAAAACTTCTTATTGAG
7661911 CTAGGACC
326 CTAGGACC
7661919 NNNNNNNNNN
Statistics
Matches: 320, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
351 320 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (351 bp):
CCTCGAGAACAGGACCATCAAGGACATAAGCCTTTTTCTCTTGTTTCAAGACAATCTTGATATTG
CAAAACCAGTAAATGAAATTTGGCCCTGTCAACTGGTTTGCATCAAGTATGCTTCTAAGTGACAA
ACCAATCGCCATGATTGATTTATATAGATTTATATCCTATATAAATCAACATATATAAAACTTAG
TCGTTAACACAAATTATGAAATCATAAAGACAAGGTTATAAAAGCTTATATGATTATTCTCAATA
TTTTATCAAAATAATAGCCTTCCTCTAATATTTCGAGAAATTTAACCTTAAAACTTCTTATTGAG
CTAGGACCTTTTTTATCCCACCATGA
Found at i:7665873 original size:37 final size:37
Alignment explanation
Indices: 7665805--7665875 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
7665795 GGAGTCATCG
*
7665805 TGTGCATCCCCCACATCGCACATAGCTAATATCACTA
1 TGTGCATCCCCCACATCGCACACAGCTAATATCACTA
7665842 TGTGCATCCCCCACATCGCACACACGC-AATATCA
1 TGTGCATCCCCCACATCGCACACA-GCTAATATCA
7665876 TCATCCCCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
37 30 0.94
38 2 0.06
ACGTcount: A:0.30, C:0.38, G:0.11, T:0.21
Consensus pattern (37 bp):
TGTGCATCCCCCACATCGCACACAGCTAATATCACTA
Found at i:7666922 original size:35 final size:35
Alignment explanation
Indices: 7666883--7666961 Score: 131
Period size: 35 Copynumber: 2.3 Consensus size: 35
7666873 AGTAAGCTTT
*
7666883 TTGCTCTTTTCAACCTCAAAAATCAGTAGCCAAAG
1 TTGCTCATTTCAACCTCAAAAATCAGTAGCCAAAG
7666918 TTGCTCATTTCAACCTCAAAAATCAGTAGCCAAAG
1 TTGCTCATTTCAACCTCAAAAATCAGTAGCCAAAG
* *
7666953 CTGTTCATT
1 TTGCTCATT
7666962 ACACTCTCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.30
Consensus pattern (35 bp):
TTGCTCATTTCAACCTCAAAAATCAGTAGCCAAAG
Found at i:7666971 original size:35 final size:35
Alignment explanation
Indices: 7666884--7666973 Score: 119
Period size: 35 Copynumber: 2.6 Consensus size: 35
7666874 GTAAGCTTTT
* * *
7666884 TGCTCTTTTCAACCTCAAAAATCAGTAGCCAAAGT
1 TGCTCATTACAACCTCAAAAATCAGTAGCCAAAGC
*
7666919 TGCTCATTTCAACCTCAAAAATCAGTAGCCAAAGC
1 TGCTCATTACAACCTCAAAAATCAGTAGCCAAAGC
*
7666954 TGTTCATTAC-ACTCTCAAAA
1 TGCTCATTACAAC-CTCAAAA
7666974 CCAACAGCCA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 2 0.04
35 48 0.96
ACGTcount: A:0.36, C:0.27, G:0.10, T:0.28
Consensus pattern (35 bp):
TGCTCATTACAACCTCAAAAATCAGTAGCCAAAGC
Found at i:7667062 original size:91 final size:91
Alignment explanation
Indices: 7666894--7667125 Score: 297
Period size: 91 Copynumber: 2.5 Consensus size: 91
7666884 TGCTCTTTTC
* * * * *
7666894 AACCTCAAAAATCAGTAGCCAAAGTTGCTCATTTCAACCTCAAAAATCAGTAGCCAAAGCTGTTC
1 AACCTCAAAAATCAATAGCCAAAGCTGCTCATTTCAGCTTCAAAAATCAGTAGCCAAAGCTGCTC
7666959 ATTACACTCTCAAAACCAACAGCCAA
66 ATTACACTCTCAAAACCAACAGCCAA
* *
7666985 AACCTCAAAAATCAATAGCCAAAGCTGCTCCTTTCAGCTTTCAAAAATCAGTAGCCAAAGTTGCT
1 AACCTCAAAAATCAATAGCCAAAGCTGCTCATTTCAGC-TTCAAAAATCAGTAGCCAAAGCTGCT
****
7667050 CATCT-CAC-CTCAAAACTGGTAGCCAA
65 CAT-TACACTCTCAAAACCAACAGCCAA
* * *
7667076 AACCTCAAAAATCAACAACCAAAGCTGCTCTTTTCAGCCTTCAAAAATCA
1 AACCTCAAAAATCAATAGCCAAAGCTGCTCATTTCAG-CTTCAAAAATCA
7667126 ACCCTTCCTC
Statistics
Matches: 124, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
91 93 0.75
92 30 0.24
93 1 0.01
ACGTcount: A:0.39, C:0.29, G:0.10, T:0.22
Consensus pattern (91 bp):
AACCTCAAAAATCAATAGCCAAAGCTGCTCATTTCAGCTTCAAAAATCAGTAGCCAAAGCTGCTC
ATTACACTCTCAAAACCAACAGCCAA
Found at i:7667276 original size:16 final size:18
Alignment explanation
Indices: 7667255--7667288 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7667245 ACCACTCAGC
7667255 TTTTTC-TC-TTCTCTTT
1 TTTTTCTTCTTTCTCTTT
7667271 TTTTTCTTCTTTCTCTTT
1 TTTTTCTTCTTTCTCTTT
7667289 CTGCTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 2 0.12
18 8 0.50
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTCTTCTTTCTCTTT
Found at i:7668688 original size:43 final size:43
Alignment explanation
Indices: 7668621--7668752 Score: 160
Period size: 43 Copynumber: 3.1 Consensus size: 43
7668611 GTAATTATAT
* *
7668621 TGACTCGGTTATGTGCGAGTAGGGAGTGCGCATAAGTCGAG-GA
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACTCG-GTGA
*
7668664 TGACCTGGTTATGTGCGAGTAGGGAGTGCGCATAACTCGGTGA
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACTCGGTGA
* ** * *
7668707 TGACCCAGCCATGTGCGAGTAGGGAGTACGCATGAGCT-GGTGA
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCAT-AACTCGGTGA
7668750 TGA
1 TGA
7668753 TGATGATGGG
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
42 1 0.01
43 74 0.95
44 3 0.04
ACGTcount: A:0.23, C:0.17, G:0.38, T:0.23
Consensus pattern (43 bp):
TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACTCGGTGA
Found at i:7676248 original size:43 final size:43
Alignment explanation
Indices: 7676182--7676313 Score: 144
Period size: 43 Copynumber: 3.1 Consensus size: 43
7676172 GTAATTATAT
*
7676182 TGACTCGGTTATGTGCGAGTAGGGAGTGCGCATAAGC-CGAG-GA
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAA-CTCG-GTGA
* * *
7676225 TGATCCGGTTATGTGCAAGTAGGGAGTGTGCATAACTCGGTGA
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACTCGGTGA
* ** *
7676268 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCATGAGCT-GGTGA
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCAT-AACTCGGTGA
7676311 TGA
1 TGA
7676314 TGATGATGGG
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
42 2 0.03
43 70 0.93
44 3 0.04
ACGTcount: A:0.23, C:0.17, G:0.38, T:0.23
Consensus pattern (43 bp):
TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACTCGGTGA
Found at i:7677476 original size:3 final size:3
Alignment explanation
Indices: 7677468--7677497 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
7677458 TGGTCTTTCT
7677468 TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7677498 ATGCTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:7679555 original size:2 final size:2
Alignment explanation
Indices: 7679548--7679579 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7679538 TGAAGGAATA
7679548 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7679580 NNNNNNNNNN
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7688193 original size:27 final size:27
Alignment explanation
Indices: 7688163--7688227 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
7688153 CATTTCCTGA
* *
7688163 AATGCTTGCTTGAAAAT-ATTTTGGACG
1 AATGCTTGCTTGAAAATGA-TTTGAAAG
* * *
7688190 AATGATTACTTGACAATGATTTGAAAG
1 AATGCTTGCTTGAAAATGATTTGAAAG
7688217 AATGCTTGCTT
1 AATGCTTGCTT
7688228 AATGACAATG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (27 bp):
AATGCTTGCTTGAAAATGATTTGAAAG
Found at i:7688741 original size:20 final size:19
Alignment explanation
Indices: 7688705--7688746 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
7688695 ATTAGGTTAC
7688705 TTTTAGTTAGTTATTTTAA
1 TTTTAGTTAGTTATTTTAA
* *
7688724 TTTTATGTTATTTCTTTTAA
1 TTTTA-GTTAGTTATTTTAA
7688744 TTT
1 TTT
7688747 GTTTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.69
Consensus pattern (19 bp):
TTTTAGTTAGTTATTTTAA
Found at i:7689739 original size:18 final size:18
Alignment explanation
Indices: 7689716--7689751 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
7689706 TCTAAGTTAG
7689716 CAATTCAACCTGTTGAAA
1 CAATTCAACCTGTTGAAA
7689734 CAATTCAACCTGTTGAAA
1 CAATTCAACCTGTTGAAA
7689752 TAAGTTAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (18 bp):
CAATTCAACCTGTTGAAA
Found at i:7689890 original size:14 final size:14
Alignment explanation
Indices: 7689871--7689897 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7689861 TTGATTTTAA
7689871 TTTTAGTTAATTAG
1 TTTTAGTTAATTAG
7689885 TTTTAGTTAATTA
1 TTTTAGTTAATTA
7689898 ATTAATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (14 bp):
TTTTAGTTAATTAG
Found at i:7692157 original size:20 final size:20
Alignment explanation
Indices: 7692132--7692177 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
7692122 TTTTGACCCC
7692132 ATTTGACTTATT-AGAGTATA
1 ATTTGACTTATTGA-AGTATA
*
7692152 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
7692172 ATTTGA
1 ATTTGA
7692178 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:7692253 original size:28 final size:27
Alignment explanation
Indices: 7692222--7692274 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
7692212 TTTGGAGTAT
*
7692222 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
7692250 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
7692275 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:7692280 original size:28 final size:28
Alignment explanation
Indices: 7692222--7692280 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
7692212 TTTGGAGTAT
* *
7692222 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
7692250 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
7692278 AGG
1 AGG
7692281 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:7702447 original size:25 final size:25
Alignment explanation
Indices: 7702389--7702449 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
7702379 CTGGTCGCAA
7702389 CCACGTATATCAACCTGTGGCCTAG
1 CCACGTATATCAACCTGTGGCCTAG
* *
7702414 CCACATATATCAACCTGTGGCCTTG
1 CCACGTATATCAACCTGTGGCCTAG
*
7702439 CCATGTATATC
1 CCACGTATATC
7702450 TCACAGACCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (25 bp):
CCACGTATATCAACCTGTGGCCTAG
Found at i:7706182 original size:17 final size:17
Alignment explanation
Indices: 7706160--7706192 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7706150 AAATGAGGAT
7706160 TGCTCCCCCTAAGTATA
1 TGCTCCCCCTAAGTATA
7706177 TGCTCCCCCTAAGTAT
1 TGCTCCCCCTAAGTAT
7706193 GTGCATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.36, G:0.12, T:0.30
Consensus pattern (17 bp):
TGCTCCCCCTAAGTATA
Found at i:7713482 original size:35 final size:35
Alignment explanation
Indices: 7713426--7713494 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
7713416 TTCACCAAGC
*
7713426 TTTACAATAGCTTTTACCAGGCTCAGCTAAAACCT
1 TTTACAATAGCTTTTACCAGGCTCAACTAAAACCT
* *
7713461 TTTACACTAG-TTTTTCACAGGCTCAACTAAAACC
1 TTTACAATAGCTTTTAC-CAGGCTCAACTAAAACC
7713495 CAAAGTGGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 5 0.17
35 25 0.83
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.32
Consensus pattern (35 bp):
TTTACAATAGCTTTTACCAGGCTCAACTAAAACCT
Found at i:7713931 original size:13 final size:13
Alignment explanation
Indices: 7713913--7713938 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7713903 ACAAAGAGCT
7713913 CTTGGTCGACTAA
1 CTTGGTCGACTAA
7713926 CTTGGTCGACTAA
1 CTTGGTCGACTAA
7713939 GTTGATTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (13 bp):
CTTGGTCGACTAA
Found at i:7716115 original size:39 final size:40
Alignment explanation
Indices: 7716061--7716153 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
7716051 CGAGATTGAA
* * * *
7716061 TCTCGCTACAGCGAAATT-TCTACCCA-AAAATAGAACGTT
1 TCTCGCTGCAGCGAAATTGT-AACCCAGAAAACAGAAAGTT
7716100 TCTCGCTGCAGCGAAATTGTAACCCAGAAAACAGAAAGTT
1 TCTCGCTGCAGCGAAATTGTAACCCAGAAAACAGAAAGTT
*
7716140 TCTCACTGCAGCGA
1 TCTCGCTGCAGCGA
7716154 GAAGCTACAG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
39 22 0.47
40 25 0.53
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (40 bp):
TCTCGCTGCAGCGAAATTGTAACCCAGAAAACAGAAAGTT
Found at i:7716523 original size:43 final size:43
Alignment explanation
Indices: 7716475--7716593 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 43
7716465 TCACTAGCTC
* ** * *
7716475 ATGCGCACTCCCTACTCACACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
*
7716518 ATGCGCACTCTCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
* *
7716561 ATGCGCACTCCCTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
7716594 ATATAATTAC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 65 0.98
ACGTcount: A:0.20, C:0.37, G:0.20, T:0.23
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
Found at i:7720158 original size:50 final size:51
Alignment explanation
Indices: 7720077--7720203 Score: 143
Period size: 50 Copynumber: 2.5 Consensus size: 51
7720067 TTCCTATCAC
** *
7720077 AAAGCAAGAATCCT-TTGTGGATTGTGTGGGTTACT-ACTTGATCTCGT-AA
1 AAAGCAAGAATCCTATTGTGGATTGTAAGGGTTACTGA-TTCATCTCGTGAA
* * *
7720126 AAAGCAAGAATTCTATTGTGGATTGTAAGGGTTATTGATTCATCTTGTGAA
1 AAAGCAAGAATCCTATTGTGGATTGTAAGGGTTACTGATTCATCTCGTGAA
* * *
7720177 AACGCAAGAATCCCATTGTGGAATGTA
1 AAAGCAAGAATCCTATTGTGGATTGTA
7720204 TGAGGTTTAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
49 13 0.20
50 26 0.40
51 26 0.40
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.33
Consensus pattern (51 bp):
AAAGCAAGAATCCTATTGTGGATTGTAAGGGTTACTGATTCATCTCGTGAA
Done.