Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 120 of 332
Found at i:38673787 original size:119 final size:120
Alignment explanation
Indices: 38673603--38673825 Score: 294
Period size: 119 Copynumber: 1.9 Consensus size: 120
38673593 GCTCCTCGTT
*
38673603 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGATTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGATTTAACCCGG
* *
38673668 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
* **
38673723 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGGGAT-TTAACC
* * *
38673784 CGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
63 CGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCG
38673826 GACATCATTC
Statistics
Matches: 90, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
118 7 0.08
119 61 0.68
120 22 0.24
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGATTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
Found at i:38673827 original size:40 final size:40
Alignment explanation
Indices: 38673603--38673827 Score: 239
Period size: 40 Copynumber: 5.7 Consensus size: 40
38673593 GCTCCTCGTT
* * *
38673603 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
* * *
38673643 CAAATGCCTTCGGGATTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
* * *
38673683 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
38673723 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
* * *
38673762 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
38673803 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38673828 CATCATTCAA
Statistics
Matches: 160, Mismatches: 15, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
38 3 0.02
39 29 0.18
40 113 0.71
41 14 0.09
42 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:38675867 original size:35 final size:35
Alignment explanation
Indices: 38675828--38675898 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
38675818 TTTCCACAAA
* *
38675828 AAAATTTACACATTTTACAAATAATTCCTTATTTG
1 AAAATTTACACATTTCACAAATAAATCCTTATTTG
*
38675863 AAAATTTACATATTTCACAAATAAATCCTTATTTG
1 AAAATTTACACATTTCACAAATAAATCCTTATTTG
38675898 A
1 A
38675899 CATTTCACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.03, T:0.41
Consensus pattern (35 bp):
AAAATTTACACATTTCACAAATAAATCCTTATTTG
Found at i:38678773 original size:37 final size:37
Alignment explanation
Indices: 38678723--38678797 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
38678713 TTATTACGAA
* *
38678723 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
38678760 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
38678797 G
1 G
38678798 ACTTTAGAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 32 0.94
38 2 0.06
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:38679091 original size:49 final size:47
Alignment explanation
Indices: 38678918--38679917 Score: 1642
Period size: 47 Copynumber: 20.9 Consensus size: 47
38678908 CCCTTCGGGA
* * * * * *
38678918 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38678965 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATT-GGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38679011 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38679058 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38679107 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38679154 CCTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38679203 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38679252 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38679299 CTTATCCATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTAT-CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38679347 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38679394 CCTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38679443 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38679492 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38679541 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38679588 CCTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38679637 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38679684 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38679731 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38679780 CTTATCACATATATACACTTTCACATTCATCACATCGGCAATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38679827 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38679874 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
38679918 CGCCATACTA
Statistics
Matches: 908, Mismatches: 33, Indels: 24
0.94 0.03 0.02
Matches are distributed among these distances:
46 43 0.05
47 448 0.49
48 45 0.05
49 372 0.41
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38679139 original size:96 final size:94
Alignment explanation
Indices: 38678918--38679917 Score: 1660
Period size: 96 Copynumber: 10.5 Consensus size: 94
38678908 CCCTTCGGGA
* * * * * * * * *
38678918 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
38678983 TTTCACATTCATCACATCGGCCATT-GGC
66 TTTCACATTCATCACATCGGCCATTAGGC
38679011 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ATATATAC
38679076 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
38679107 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ATATATAC
*
38679172 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
38679203 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
38679268 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
38679299 CTTATCCATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
1 CTTAT-CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
38679364 CTTTCACATTCATCACATCGGCCATTAGGC
65 CTTTCACATTCATCACATCGGCCATTAGGC
*
38679394 CCTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ATATAT
*
38679459 ACACTTTCACATTCATCACATCGGCTATTAGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
38679492 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
38679557 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
38679588 CCTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
38679653 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
38679684 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ATATATAC
38679749 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
38679780 CTTATCACATATATACACTTTCACATTCATCACATCGGCAATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
38679845 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
38679874 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTA
38679918 CGCCATACTA
Statistics
Matches: 868, Mismatches: 27, Indels: 23
0.95 0.03 0.03
Matches are distributed among these distances:
93 46 0.05
94 131 0.15
95 124 0.14
96 426 0.49
97 2 0.00
98 139 0.16
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:38688056 original size:15 final size:15
Alignment explanation
Indices: 38688036--38688100 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
38688026 GTATCTTGGG
38688036 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
38688051 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
38688066 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
38688081 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
38688095 TTTCTT
1 TTTCTT
38688101 GTTATCTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 12 0.28
15 27 0.63
16 4 0.09
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:38688067 original size:30 final size:31
Alignment explanation
Indices: 38688032--38688100 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
38688022 TATCGTATCT
38688032 TGGGTTTCTT-TAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCT-TGGATTTCTTTATTC
38688062 TGGGTTT-TTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCTTGGATTTCTTTATTC
*
38688092 -GGTTTTCTT
1 TGGGTTTCTT
38688101 GTTATCTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 7 0.20
30 27 0.77
31 1 0.03
ACGTcount: A:0.09, C:0.13, G:0.17, T:0.61
Consensus pattern (31 bp):
TGGGTTTCTTCTATCTTGGATTTCTTTATTC
Found at i:38690117 original size:6 final size:6
Alignment explanation
Indices: 38690106--38690132 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
38690096 ATTGTGTTAC
38690106 ATGTAT ATGTAT ATGTAT ATGTAT ATG
1 ATGTAT ATGTAT ATGTAT ATGTAT ATG
38690133 AGAGTTGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (6 bp):
ATGTAT
Found at i:38692213 original size:39 final size:39
Alignment explanation
Indices: 38692162--38692438 Score: 403
Period size: 39 Copynumber: 7.1 Consensus size: 39
38692152 AACCCGAAAT
* * *
38692162 TATATTAT-CAGCACAAAGCCTGTGGGACTTTAACCCGGA
1 TATATT-TCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
*
38692201 TATATTTCCAGCACGAAGCCTGCGGGACTTTGGCCCGGA
1 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
* *
38692240 TACATTTCCAGCACGAAGCCTGCGGGACTTTAGTCCGGA
1 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
* * * * *
38692279 TACATTTCCAGCACGAAGCCTGTGGGGCTTTGGCCTGGA
1 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
*
38692318 TATATTTCCAGTACGAAGCCTGCGGGACTTTAGCCCGGA
1 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
*
38692357 TATATTTCCAGCACGAAGCCTACGGGACTTTAGCCCGGA
1 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
* *
38692396 TACATTTCCAGCACGAAGCCTGTGGGACTTTAGCCCGGA
1 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
38692435 TATA
1 TATA
38692439 AGCACAAAAT
Statistics
Matches: 213, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
38 1 0.00
39 212 1.00
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (39 bp):
TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
Found at i:38692376 original size:117 final size:117
Alignment explanation
Indices: 38692170--38692438 Score: 448
Period size: 117 Copynumber: 2.3 Consensus size: 117
38692160 ATTATATTAT
* * *
38692170 CAGCACAAAGCCTGTGGGACTTTAACCCGGATATATTTCCAGCACGAAGCCTGCGGGACTTTGGC
1 CAGCACGAAGCCTGTGGGACTTTAGCCCGGATATATTTCCAGCACGAAGCCTGCGGGACTTTAGC
* *
38692235 CCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGTCCGGATACATTTC
66 CCGGATACATTTCCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTC
* * * *
38692287 CAGCACGAAGCCTGTGGGGCTTTGGCCTGGATATATTTCCAGTACGAAGCCTGCGGGACTTTAGC
1 CAGCACGAAGCCTGTGGGACTTTAGCCCGGATATATTTCCAGCACGAAGCCTGCGGGACTTTAGC
*
38692352 CCGGATATATTTCCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTC
66 CCGGATACATTTCCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTC
38692404 CAGCACGAAGCCTGTGGGACTTTAGCCCGGATATA
1 CAGCACGAAGCCTGTGGGACTTTAGCCCGGATATA
38692439 AGCACAAAAT
Statistics
Matches: 139, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
117 139 1.00
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.23
Consensus pattern (117 bp):
CAGCACGAAGCCTGTGGGACTTTAGCCCGGATATATTTCCAGCACGAAGCCTGCGGGACTTTAGC
CCGGATACATTTCCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTC
Found at i:38697059 original size:50 final size:50
Alignment explanation
Indices: 38696924--38697119 Score: 205
Period size: 50 Copynumber: 3.9 Consensus size: 50
38696914 ATGATCTATT
* * * *
38696924 GTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAA
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-AAA
* * * * * ** *
38696975 CTGTGATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATTAGAAG
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAA
* **
38697025 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAA
* * * *
38697075 GT-TGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
38697120 AATAGTTTTG
Statistics
Matches: 120, Mismatches: 25, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
49 38 0.32
50 46 0.38
51 36 0.30
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.27
Consensus pattern (50 bp):
GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAA
Found at i:38702120 original size:28 final size:28
Alignment explanation
Indices: 38702023--38702123 Score: 157
Period size: 28 Copynumber: 3.6 Consensus size: 28
38702013 TAGTAAGTCC
* * *
38702023 GCACACTTAGTGTTAGATAATCAAACTC
1 GCACACTTAGTGCTATATAATCAAACTT
*
38702051 GCACACTTAGTGCTTACATAATCAAACTT
1 GCACACTTAGTGC-TATATAATCAAACTT
38702080 GCACACTTAGTGCTATATAATCAAACTT
1 GCACACTTAGTGCTATATAATCAAACTT
38702108 GCACACTTAGTGCTAT
1 GCACACTTAGTGCTAT
38702124 GCAATTTAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 42 0.62
29 26 0.38
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.31
Consensus pattern (28 bp):
GCACACTTAGTGCTATATAATCAAACTT
Found at i:38702141 original size:57 final size:57
Alignment explanation
Indices: 38702021--38702149 Score: 170
Period size: 57 Copynumber: 2.3 Consensus size: 57
38702011 TATAGTAAGT
*
38702021 CCGCACACTTAGTGTTAGATAATCAAACTCGCACACTTAGTGCTTACATAATCAAAC
1 CCGCACACTTAGTGCTAGATAATCAAACTCGCACACTTAGTGCTTACATAATCAAAC
** * * * * *
38702078 TTGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCA-ATTTAAAC
1 CCGCACACTTAGTGCTAGATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
38702135 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
38702150 CGAAATCAAC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
57 58 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTAGATAATCAAACTCGCACACTTAGTGCTTACATAATCAAAC
Found at i:38702144 original size:29 final size:28
Alignment explanation
Indices: 38702022--38702149 Score: 141
Period size: 28 Copynumber: 4.5 Consensus size: 28
38702012 ATAGTAAGTC
* * *
38702022 CGCACACTTAGTGTTAGATAATCAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
38702050 CGCACACTTAGTGCT-TACATAATCAAACT
1 CGCACACTTAGTGCTATAC--AATCAAACT
* *
38702079 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
* * * *
38702107 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATACAA-TCAAACT
38702136 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38702150 CGAAATCAAC
Statistics
Matches: 86, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
27 1 0.01
28 42 0.49
29 41 0.48
30 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:38706767 original size:42 final size:42
Alignment explanation
Indices: 38706637--38706768 Score: 117
Period size: 42 Copynumber: 3.1 Consensus size: 42
38706627 TAAGATGCTA
* * * ** *
38706637 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCC
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCG
** *
38706679 ATGCCAATAG-CCCAG-CTATGGTCTTACACGATGTCTCATAAT-G
1 ATGCC-AT-GTCCCAGAC-ATGGTCTTACACGAAATCACAT-ATCG
*
38706722 ATGCCATGTCGCAGACATGGTCTTACACGAAATCACATATCG
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCG
38706764 ATGCC
1 ATGCC
38706769 GATACCATGT
Statistics
Matches: 71, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
41 3 0.04
42 36 0.51
43 30 0.42
44 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCG
Found at i:38706806 original size:48 final size:48
Alignment explanation
Indices: 38706725--38706826 Score: 116
Period size: 48 Copynumber: 2.1 Consensus size: 48
38706715 CATAATGATG
* * * *
38706725 CCATGTCGCAGACATGGTCTTACACGAAATCACATATCGATGCCGATA
1 CCATGTCCCAGACATAGTCTTACACGAAATCACACATCGAGGCCGATA
** * *
38706773 CCATGTCCCAGACATAGTCTTACACTG-TCTCACACGTCGAGGCCGATG
1 CCATGTCCCAGACATAGTCTTACAC-GAAATCACACATCGAGGCCGATA
38706821 CCATGT
1 CCATGT
38706827 GGTCTTATAC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
48 44 0.98
49 1 0.02
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (48 bp):
CCATGTCCCAGACATAGTCTTACACGAAATCACACATCGAGGCCGATA
Found at i:38711557 original size:27 final size:27
Alignment explanation
Indices: 38711527--38711592 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
38711517 AACAAAGTTG
*
38711527 CCAGTATCAGTATATGTGGCAAAGCTA
1 CCAGTATCAGTATATGTGGCAAAGCCA
38711554 CCAGTAAT-AGTATATGTGGCAAAGCCA
1 CCAGT-ATCAGTATATGTGGCAAAGCCA
* *
38711581 GCAGTAACAGTA
1 CCAGTATCAGTA
38711593 CACTTCCCCC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.03
27 31 0.91
28 2 0.06
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (27 bp):
CCAGTATCAGTATATGTGGCAAAGCCA
Found at i:38722924 original size:17 final size:17
Alignment explanation
Indices: 38722904--38722936 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
38722894 AAGGAAAATA
38722904 AATGAATCTTAAAAACG
1 AATGAATCTTAAAAACG
*
38722921 AATGAGTCTTAAAAAC
1 AATGAATCTTAAAAAC
38722937 TTAATAAAAG
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:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (17 bp):
AATGAATCTTAAAAACG
Found at i:38731558 original size:40 final size:40
Alignment explanation
Indices: 38731502--38731729 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
38731492 TAATTGAGGA
* * * *
38731502 TTATATCTGGGTTAAGTCTCGAAGGCTTTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTG
* * *
38731542 TTATCTCTGGGTTAAGTCCCGAAGGCATTCATGCTAGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTG
* * *
38731582 TTATATCCGGGTTAAGTCCCAAAGGCGTTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTG
* *
38731622 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTAGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTG
** * * * *
38731662 TTATATCCGGGCCAAGTTCCGAAGGCACTCGTACT-GGTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTG
* *
38731701 TTATATCCGGGCTAAGTCCCCAAGGCATT
1 TTATATCCGGGTTAAGTCCCGAAGGCATT
38731730 TGTGTTTGGA
Statistics
Matches: 162, Mismatches: 26, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
39 28 0.17
40 134 0.83
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.32
Consensus pattern (40 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTG
Found at i:38731638 original size:80 final size:80
Alignment explanation
Indices: 38731502--38731729 Score: 305
Period size: 80 Copynumber: 2.9 Consensus size: 80
38731492 TAATTGAGGA
* * * * * *
38731502 TTATATCTGGGTTAAGTCTCGAAGGCTTTCGTGCTGGTTGTTATCTCTGGGTTAAGTCCCGAAGG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATATCCGGGCTAAGTCCCGAAGG
38731567 CATTCATGCTAGTTG
66 CATTCATGCTAGTTG
* * *
38731582 TTATATCCGGGTTAAGTCCCAAAGGCGTTCGTGCTGGTTGTTATATCCGGGCTAAGTCCTGAAGG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATATCCGGGCTAAGTCCCGAAGG
*
38731647 CATTCGTGCTAGTTG
66 CATTCATGCTAGTTG
** * * * *
38731662 TTATATCCGGGCCAAGTTCCGAAGGCACTCGTACTGG-TGTTATATCCGGGCTAAGTCCCCAAGG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATATCCGGGCTAAGTCCCGAAGG
38731726 CATT
66 CATT
38731730 TGTGTTTGGA
Statistics
Matches: 130, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 29 0.22
80 101 0.78
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.32
Consensus pattern (80 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATATCCGGGCTAAGTCCCGAAGG
CATTCATGCTAGTTG
Found at i:38739849 original size:24 final size:24
Alignment explanation
Indices: 38739817--38739864 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
38739807 ATGAAAATTT
38739817 GGTATTTATTTTTGATTGTGTGTG
1 GGTATTTATTTTTGATTGTGTGTG
38739841 GGTATTTATTTTTGATTGTGTGTG
1 GGTATTTATTTTTGATTGTGTGTG
38739865 TATGACCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.00, G:0.29, T:0.58
Consensus pattern (24 bp):
GGTATTTATTTTTGATTGTGTGTG
Found at i:38741053 original size:47 final size:47
Alignment explanation
Indices: 38740989--38741336 Score: 624
Period size: 47 Copynumber: 7.4 Consensus size: 47
38740979 CAGCCAAGAC
* *
38740989 AGTGTATATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
38741036 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
38741083 AGTGTATATGTGTGATAAGGCCTAATGGACGATGGGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
38741130 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
38741177 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
38741224 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
38741271 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
38741318 AGTGTATATATGTGATAAG
1 AGTGTATATGTGTGATAAG
38741337 TCCTGAAGGG
Statistics
Matches: 293, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 293 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:38741511 original size:37 final size:37
Alignment explanation
Indices: 38741455--38741533 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
38741445 CCGAGCTCTA
* *
38741455 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
38741492 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
38741529 AAGAC
1 AAGAC
38741534 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:38743694 original size:40 final size:40
Alignment explanation
Indices: 38743639--38743866 Score: 305
Period size: 40 Copynumber: 5.7 Consensus size: 40
38743629 TAATTGAAGA
* *
38743639 TTATATCCGGGTTAAGTCCCGAAGGCTTTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
38743679 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTC
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
38743719 TTATATCCGAGTTAAGTCCCGAAGGCATTCGTGTTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
38743759 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGTTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * * * * *
38743799 TTATATCTGGGCCAAGTTCCGAAGGCAGTCGTACT-GATG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
38743838 TTATATCCAGGCTAAGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
38743867 TGTGTTTGGA
Statistics
Matches: 167, Mismatches: 21, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 27 0.16
40 140 0.84
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (40 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:38762247 original size:46 final size:44
Alignment explanation
Indices: 38762197--38762369 Score: 163
Period size: 46 Copynumber: 3.8 Consensus size: 44
38762187 GTTGAGCATC
38762197 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGCT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATG-GAATGCT
* * * *
38762243 CGAACTCGTTTAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAGGCAT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGGAA-T--GC-T
* * *
38762289 CCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGAATGTGAACGC-
1 -CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATG-GAATGCT
*
38762335 CTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAGG
1 C-GAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
38762370 GGCGGGTTAC
Statistics
Matches: 103, Mismatches: 14, Indels: 21
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 6 0.06
46 56 0.54
47 25 0.24
48 4 0.04
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (44 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGGAATGCT
Found at i:38762351 original size:93 final size:93
Alignment explanation
Indices: 38762192--38762362 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
38762182 GGATGGTTGA
* * *
38762192 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGCTCGAACTCGTTTAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGAATGCGAACGCTCGAACTCGTTGAGT
38762257 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
38762285 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGAATGTGAACGC-CTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGAATGCGAACGCTC-GAACTCGTTGAG
38762349 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
38762363 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGAATGCGAACGCTCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38766514 original size:16 final size:16
Alignment explanation
Indices: 38766493--38766524 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
38766483 GCACCAGTGT
38766493 TAGTACAGCCCGAATC
1 TAGTACAGCCCGAATC
38766509 TAGTACAGCCCGAATC
1 TAGTACAGCCCGAATC
38766525 AGGTAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (16 bp):
TAGTACAGCCCGAATC
Found at i:38777476 original size:36 final size:37
Alignment explanation
Indices: 38777432--38777505 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 37
38777422 GATACTATGA
38777432 AAGATAAGTATTTGGATAAGCATGTGCATATG-CATG
1 AAGATAAGTATTTGGATAAGCATGTGCATATGACATG
*
38777468 AAGATAAGTATTTGGATAAGCATGTGGATATGACATG
1 AAGATAAGTATTTGGATAAGCATGTGCATATGACATG
38777505 A
1 A
38777506 TGAAAAGTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 31 0.86
37 5 0.14
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.30
Consensus pattern (37 bp):
AAGATAAGTATTTGGATAAGCATGTGCATATGACATG
Found at i:38777485 original size:12 final size:12
Alignment explanation
Indices: 38777434--38777497 Score: 56
Period size: 12 Copynumber: 5.3 Consensus size: 12
38777424 TACTATGAAA
* *
38777434 GATAAGTATTTG
1 GATAAGCATGTG
38777446 GATAAGCATGTG
1 GATAAGCATGTG
* * **
38777458 CATATGCATGAA
1 GATAAGCATGTG
* *
38777470 GATAAGTATTTG
1 GATAAGCATGTG
38777482 GATAAGCATGTG
1 GATAAGCATGTG
38777494 GATA
1 GATA
38777498 TGACATGATG
Statistics
Matches: 38, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (12 bp):
GATAAGCATGTG
Found at i:38779218 original size:35 final size:35
Alignment explanation
Indices: 38779176--38779245 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
38779166 GGGAGAAAGA
38779176 AAGAAAATTTAAGAGAAAAGAGGAGAGAAAGAGGG
1 AAGAAAATTTAAGAGAAAAGAGGAGAGAAAGAGGG
*
38779211 AAGAAAATTTAAGAGAAAAGAGGAGAGGAAGAGGG
1 AAGAAAATTTAAGAGAAAAGAGGAGAGAAAGAGGG
38779246 TGAACGGCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.56, C:0.00, G:0.36, T:0.09
Consensus pattern (35 bp):
AAGAAAATTTAAGAGAAAAGAGGAGAGAAAGAGGG
Found at i:38783674 original size:17 final size:19
Alignment explanation
Indices: 38783654--38783688 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
38783644 AATAATAGAT
38783654 TTATTAAA-CT-AATTAAA
1 TTATTAAATCTAAATTAAA
38783671 TTATTAAATCTAAATTAA
1 TTATTAAATCTAAATTAA
38783689 CCTAATGGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (19 bp):
TTATTAAATCTAAATTAAA
Found at i:38798842 original size:30 final size:30
Alignment explanation
Indices: 38798806--38798872 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
38798796 GAGGGAACCA
38798806 TGTGTCACACATGACCTAGACACATGCCCG
1 TGTGTCACACATGACCTAGACACATGCCCG
* * *
38798836 TGTGTCACGCATGGCCTAGAGACATGCCCG
1 TGTGTCACACATGACCTAGACACATGCCCG
38798866 TGTGTCA
1 TGTGTCA
38798873 ACCATGTGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.22, C:0.30, G:0.25, T:0.22
Consensus pattern (30 bp):
TGTGTCACACATGACCTAGACACATGCCCG
Found at i:38804384 original size:68 final size:65
Alignment explanation
Indices: 38804170--38804422 Score: 205
Period size: 68 Copynumber: 3.8 Consensus size: 65
38804160 ATATAGTTCG
* * *
38804170 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTA-TCTCG
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGTGACCTAGCTACA-TATATTCTCG
38804231 TA
64 TA
* * * * * * *
38804233 GCTCTCTTGTCTACATGGTGTCCTTCACTTGGACCCACGCATGCGACCTAGCTACATATA-TCCC
1 GCTCTCTTGTCTACATGGTGTAC-ACA-TAGTA-CCACCCATGTGACCTAGCTACATATATTCTC
38804297 GTA
63 GTA
* *
38804300 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATCATAATGTCTT
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGTGACCTAGCTACAT-AT-AT-TCTC
38804365 GTA
63 GTA
* * * * **
38804368 GCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACTATACATGTGACCTAGCTACATA
1 GCTCTCTTGT-CTACATGGTGTACACAT-AGTACCACCCATGTGACCTAGCTACATA
38804423 CCATCTGTAT
Statistics
Matches: 152, Mismatches: 26, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 21 0.14
65 8 0.05
66 19 0.12
67 33 0.22
68 50 0.33
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (65 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGTGACCTAGCTACATATATTCTCGTA
Found at i:38809547 original size:30 final size:30
Alignment explanation
Indices: 38809513--38809573 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
38809503 TCCTTAACTC
38809513 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
38809543 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
38809573 A
1 A
38809574 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:38811203 original size:15 final size:15
Alignment explanation
Indices: 38811184--38811225 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
38811174 ATGACAGAGG
38811184 AATCCAAGATA-AAGA
1 AATCCAAGATACAA-A
* *
38811199 TATCCAAGGTACAAA
1 AATCCAAGATACAAA
38811214 AATCCAAGATAC
1 AATCCAAGATAC
38811226 CATATCATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.52, C:0.19, G:0.12, T:0.17
Consensus pattern (15 bp):
AATCCAAGATACAAA
Found at i:38812827 original size:50 final size:51
Alignment explanation
Indices: 38812758--38812909 Score: 198
Period size: 50 Copynumber: 3.0 Consensus size: 51
38812748 CTTATAGCCA
* * *
38812758 AAGCTATCTGTTACGCATAGTAGCCTGCACTTAGTACTACACACATGACCT
1 AAGCCATCTGATACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCT
* * * *
38812809 AA-CCATCTGATACACATAGTGGCCTGCACTTAGTACTACACACGTGATCG
1 AAGCCATCTGATACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCT
** * *
38812859 AAGTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 AAGCCATCTGATACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCT
38812910 CACAATAGAT
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
50 43 0.51
51 42 0.49
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (51 bp):
AAGCCATCTGATACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCT
Found at i:38812896 original size:51 final size:50
Alignment explanation
Indices: 38812769--38812908 Score: 190
Period size: 51 Copynumber: 2.8 Consensus size: 50
38812759 AGCTATCTGT
* * *
38812769 TACGCATAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGA
1 TACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCGAACCATCGGA
* * * ** *
38812819 TACACATAGTGGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGG
1 TACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCGAA-CCATCGGA
38812870 TACGCATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TACGCATAGTAGCCTGCACTTAGTACTACACACGTGACC
38812909 TCACAATAGA
Statistics
Matches: 77, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 37 0.48
51 40 0.52
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (50 bp):
TACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCGAACCATCGGA
Found at i:38814381 original size:43 final size:44
Alignment explanation
Indices: 38814319--38814456 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 44
38814309 GTCTCTTATA
*
38814319 CAAGCCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
1 CAAGACATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
* * *
38814363 CAAG-CATCCGAGCTCGTTGAGTGGTCCAAGTTCATGATGGATG
1 CAAGACATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
* *
38814406 CGATTTATGTAACATCTGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATG
1 C-A---A-G--ACATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
38814457 TGTTACATGT
Statistics
Matches: 78, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
43 37 0.47
44 5 0.06
47 1 0.01
48 1 0.01
51 34 0.44
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (44 bp):
CAAGACATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
Found at i:38819052 original size:23 final size:23
Alignment explanation
Indices: 38819026--38819070 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
38819016 ATTATATACC
38819026 AAAATACCTATTTAACATCATAA
1 AAAATACCTATTTAACATCATAA
38819049 AAAATACCTATTTAACATCATA
1 AAAATACCTATTTAACATCATA
38819071 CATAATCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATACCTATTTAACATCATAA
Found at i:38819823 original size:47 final size:51
Alignment explanation
Indices: 38819763--38819859 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 51
38819753 TCCTTCTGAG
*
38819763 CTGATGAACAGTAAGCTCATACGAGCCGA-A-AT-GGTAAGCTCTAATGAA
1 CTGATGAACAGTAAGCTCATACGAGCCGATATATCGGTAAGCTCAAATGAA
* *
38819811 CTGAT-AACAGTAAGCTCTTACGAGCTGATATATCGGTAAGCTCAAATGA
1 CTGATGAACAGTAAGCTCATACGAGCCGATATATCGGTAAGCTCAAATGA
38819860 GCAGTGGTGA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
47 21 0.49
48 6 0.14
49 2 0.05
50 14 0.33
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.24
Consensus pattern (51 bp):
CTGATGAACAGTAAGCTCATACGAGCCGATATATCGGTAAGCTCAAATGAA
Found at i:38819838 original size:24 final size:24
Alignment explanation
Indices: 38819745--38819840 Score: 88
Period size: 24 Copynumber: 4.0 Consensus size: 24
38819735 GAACCATGAT
38819745 CAGTAAGCTCCTT-CTGAGCTGATGAA
1 CAGTAAGCT-CTTAC-GAGCTGAT-AA
* *
38819771 CAGTAAGCTCATACGAGCCGA-AA
1 CAGTAAGCTCTTACGAGCTGATAA
** * * *
38819794 TGGTAAGCTCTAATGAACTGATAA
1 CAGTAAGCTCTTACGAGCTGATAA
38819818 CAGTAAGCTCTTACGAGCTGATA
1 CAGTAAGCTCTTACGAGCTGATA
38819841 TATCGGTAAG
Statistics
Matches: 54, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
23 16 0.30
24 20 0.37
25 8 0.15
26 10 0.19
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (24 bp):
CAGTAAGCTCTTACGAGCTGATAA
Found at i:38819852 original size:26 final size:25
Alignment explanation
Indices: 38819747--38819853 Score: 80
Period size: 24 Copynumber: 4.3 Consensus size: 25
38819737 ACCATGATCA
*
38819747 GTAAGCTCCTT-CTGAGCTGATGAA-CA
1 GTAAGCT-CTTAC-GAGCTGAT-AATCG
* *
38819773 GTAAGCTCATACGAGCCGA-AAT-G
1 GTAAGCTCTTACGAGCTGATAATCG
* * * *
38819796 GTAAGCTCTAATGAACTGATAA-CA
1 GTAAGCTCTTACGAGCTGATAATCG
38819820 GTAAGCTCTTACGAGCTGATATATCG
1 GTAAGCTCTTACGAGCTGATA-ATCG
38819846 GTAAGCTC
1 GTAAGCTC
38819854 AAATGAGCAG
Statistics
Matches: 62, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
23 16 0.26
24 20 0.32
25 9 0.15
26 17 0.27
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (25 bp):
GTAAGCTCTTACGAGCTGATAATCG
Found at i:38826543 original size:28 final size:28
Alignment explanation
Indices: 38826511--38826577 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
38826501 GTGGGAAGTA
* *
38826511 ATTGGGCCTAATGGGCCATATGAATGTG
1 ATTGGGCCTAATGGGCCATATGAACGAG
* *
38826539 ATTGGGCCTGATGGGCCATGTGAACGAG
1 ATTGGGCCTAATGGGCCATATGAACGAG
*
38826567 ATTAGGCCTAA
1 ATTGGGCCTAA
38826578 AGGGGAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.25
Consensus pattern (28 bp):
ATTGGGCCTAATGGGCCATATGAACGAG
Found at i:38826935 original size:14 final size:14
Alignment explanation
Indices: 38826916--38826943 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
38826906 CCCCCGATTT
38826916 GTAAAATTACCGAA
1 GTAAAATTACCGAA
38826930 GTAAAATTACCGAA
1 GTAAAATTACCGAA
38826944 ATACCCCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (14 bp):
GTAAAATTACCGAA
Found at i:38826949 original size:41 final size:41
Alignment explanation
Indices: 38826892--38826973 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
38826882 TAATAAAGAG
*
38826892 AAATTACCGAAATACCCCCGATTTGTAAAATTACCGAAGTA
1 AAATTACCGAAATACCCCCAATTTGTAAAATTACCGAAGTA
*
38826933 AAATTACCGAAATACCCCTAATTTGTAAAATTACCGAAGTA
1 AAATTACCGAAATACCCCCAATTTGTAAAATTACCGAAGTA
38826974 CCCCCGATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.26
Consensus pattern (41 bp):
AAATTACCGAAATACCCCCAATTTGTAAAATTACCGAAGTA
Found at i:38826968 original size:27 final size:26
Alignment explanation
Indices: 38826930--38827191 Score: 222
Period size: 27 Copynumber: 9.7 Consensus size: 26
38826920 AATTACCGAA
*
38826930 GTAAAATTACCGAAATACCCCTAATTT
1 GTAAAATTACCGAAATA-CCCTGATTT
* *
38826957 GTAAAATTACCGAAGTACCCCCGATTT
1 GTAAAATTACCGAAATA-CCCTGATTT
**
38826984 GTAAAATTACTAAAATACCCTTGA-TT
1 GTAAAATTACCGAAATACCC-TGATTT
* * *
38827010 GTGAAATTACTGAAATACCATCGATTT
1 GTAAAATTACCGAAATACCCT-GATTT
* *
38827037 GTAAAATTAGCGAAACACCCTCGATTT
1 GTAAAATTACCGAAATACCCT-GATTT
* *
38827064 GTAAAATTACCGAAACACCCTCAATTTT
1 GTAAAATTACCGAAATACCCT-GA-TTT
*
38827092 GTAAAATTATCGAAATACCCTCGATTT
1 GTAAAATTACCGAAATACCCT-GATTT
* * *
38827119 GTAAAATTATCAAAATACCCTTG-TAGT
1 GTAAAATTACCGAAATACCC-TGAT-TT
* * *
38827146 GTAAAGTTACCGAAATACCCTTATAGT
1 GTAAAATTACCGAAATACCCTGAT-TT
* *
38827173 GTAAAATGACCGACATACC
1 GTAAAATTACCGAAATACC
38827192 TTTGTAGGGT
Statistics
Matches: 199, Mismatches: 29, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.01
26 26 0.13
27 147 0.74
28 25 0.13
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (26 bp):
GTAAAATTACCGAAATACCCTGATTT
Found at i:38827066 original size:80 final size:81
Alignment explanation
Indices: 38826930--38827127 Score: 222
Period size: 80 Copynumber: 2.4 Consensus size: 81
38826920 AATTACCGAA
* * * **
38826930 GTAAAATTACCGAAATACC-CCTAATTTGTAAAATTACCGAAGTACCCCCGATTTGTAAAATTAC
1 GTAAAATTATCGAAATACCATC-GATTTGTAAAATTACCGAAACACCCCCGATTTGTAAAATTAC
* * **
38826994 TAAAATACCCTTGA-TT
65 CAAAACACCCTCAATTT
* * *
38827010 GTGAAATTA-CTGAAATACCATCGATTTGTAAAATTAGCGAAACACCCTCGATTTGTAAAATTAC
1 GTAAAATTATC-GAAATACCATCGATTTGTAAAATTACCGAAACACCCCCGATTTGTAAAATTAC
*
38827074 CGAAACACCCTCAATTTT
65 CAAAACACCCTCAA-TTT
*
38827092 GTAAAATTATCGAAATACCCTCGATTTGTAAAATTA
1 GTAAAATTATCGAAATACCATCGATTTGTAAAATTA
38827128 TCAAAATACC
Statistics
Matches: 99, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
79 1 0.01
80 62 0.63
81 1 0.01
82 34 0.34
83 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (81 bp):
GTAAAATTATCGAAATACCATCGATTTGTAAAATTACCGAAACACCCCCGATTTGTAAAATTACC
AAAACACCCTCAATTT
Found at i:38827203 original size:27 final size:27
Alignment explanation
Indices: 38827091--38827208 Score: 103
Period size: 27 Copynumber: 4.4 Consensus size: 27
38827081 CCCTCAATTT
* * * *
38827091 TGTAAAATTATCGAAATACCCTCG-ATT
1 TGTAAAATGACCGAAATACCCTTGTA-G
* * *
38827118 TGTAAAATTATCAAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
* * *
38827145 TGTAAAGTTACCGAAATACCCTTATAG
1 TGTAAAATGACCGAAATACCCTTGTAG
* *
38827172 TGTAAAATGACCGACATACCTTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
*
38827199 GGTAAAATGA
1 TGTAAAATGA
38827209 TTGTTTTGCC
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 76 0.99
28 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTGTAG
Found at i:38833949 original size:55 final size:53
Alignment explanation
Indices: 38833862--38834116 Score: 236
Period size: 55 Copynumber: 4.8 Consensus size: 53
38833852 ATTAGGGTTT
* *
38833862 AAGGATACCTTGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * *
38833917 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TCTAAGGC
* * * * *
38833972 AAAGG-TCCCATGTAATACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-TAAGGC
* *
38834025 AAGGATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGTTTCTAAGGC
* ** * *
38834074 AAGGATACCACGTAAGACCATAACAAGTCATGGAAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAG
38834117 GTACCCGTGT
Statistics
Matches: 167, Mismatches: 25, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
48 2 0.01
49 35 0.21
52 7 0.04
53 38 0.23
54 12 0.07
55 69 0.41
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:38834045 original size:53 final size:53
Alignment explanation
Indices: 38833862--38834069 Score: 240
Period size: 55 Copynumber: 3.8 Consensus size: 53
38833852 ATTAGGGTTT
* * *
38833862 AAGGATACCTTGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-G-TTCATAAGGC
* *
38833917 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * * *
38833972 AAAGG-TCCCATGTAATACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * *
38834025 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
38834070 TCAAAAGGAT
Statistics
Matches: 130, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
52 6 0.05
53 42 0.32
54 8 0.06
55 70 0.54
56 4 0.03
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:38834068 original size:108 final size:110
Alignment explanation
Indices: 38833872--38834069 Score: 312
Period size: 108 Copynumber: 1.8 Consensus size: 110
38833862 AAGGATACCT
38833872 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACCA
*
38833937 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
* * *
38833982 TGTAATACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAGACC
* *
38834044 ATGTCGAGACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCAATGATAAGTT
38834070 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 49 0.60
109 7 0.09
110 22 0.27
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:38841664 original size:55 final size:54
Alignment explanation
Indices: 38841575--38841830 Score: 212
Period size: 55 Copynumber: 4.8 Consensus size: 54
38841565 CATTAGGGTT
* *
38841575 TAAGAATACCATGTAAGACCATG-CAAAGGCATGGCAATTGGTAAGGTTTCTAAGG
1 TAAGGATACCATGTAAGACCATGTC-AAGACATGGCAATTGGTAA-GTTTCTAAGG
* * **
38841630 TAAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAC
1 TAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTA-AGG
* * * *
38841684 TCAAAGG-T-CACATGTAAGACCATGCCAAGGCAAGGC-ATTGGTGAG-TTCATAAGG
1 T--AAGGATAC-CATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTC-TAAGG
* *
38841738 CAAGGATACCATGTAAGACCATGTCAAGATATGGCAA-TGGTAAGTTTC-AA--
1 TAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGG
* * * **
38841788 -AAAGATACCACGTAAGACCATGACAATTCATGGCAA-TGGTAAG
1 TAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAG
38841831 GTACCCGTGT
Statistics
Matches: 165, Mismatches: 26, Indels: 26
0.76 0.12 0.12
Matches are distributed among these distances:
49 37 0.22
52 6 0.04
53 35 0.21
54 18 0.11
55 64 0.39
56 5 0.03
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (54 bp):
TAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGG
Found at i:38841782 original size:108 final size:110
Alignment explanation
Indices: 38841584--38841783 Score: 307
Period size: 108 Copynumber: 1.8 Consensus size: 110
38841574 TTAAGAATAC
* *
38841584 CATGTAAGACCATGCAAAGGCATGGCAATTGGTAAGGTTTCTAAGGTAAGGATACCATGTAAGAC
1 CATGTAAGACCATGCAAAGGCAAGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGAC
*
38841649 CATGTCAAGACATGGCATTGATAAGTTACTATAACTCAAAGGTCA
66 CATGTCAAGACATGGCAATGATAAGTTACTATAACTCAAAGGTCA
* *
38841694 CATGTAAGACCATGCCAAGGCAAGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGA
1 CATGTAAGACCATGCAAAGGCAAGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAGA
* *
38841756 CCATGTCAAGATATGGCAATGGTAAGTT
65 CCATGTCAAGACATGGCAATGATAAGTT
38841784 TCAAAAAGAT
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.59
109 7 0.09
110 24 0.29
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (110 bp):
CATGTAAGACCATGCAAAGGCAAGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTACTATAACTCAAAGGTCA
Found at i:38845297 original size:27 final size:26
Alignment explanation
Indices: 38845253--38845303 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
38845243 CTCGCTGCAA
*
38845253 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
38845280 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
38845304 GGCAGCCTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:38845395 original size:27 final size:27
Alignment explanation
Indices: 38845343--38845429 Score: 131
Period size: 27 Copynumber: 3.3 Consensus size: 27
38845333 CCACATATAT
* * * *
38845343 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACTTCGTCACA
38845369 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACTTCGTCACA
38845396 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACTTCGTCACA
38845423 ATATCTG
1 ATATCTG
38845430 GCAGGCTCGC
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
26 8 0.14
27 48 0.86
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.36
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACTTCGTCACA
Found at i:38852788 original size:27 final size:26
Alignment explanation
Indices: 38852744--38852795 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
38852734 CTCGCTACAA
*
38852744 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
38852771 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
38852796 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:38852890 original size:27 final size:26
Alignment explanation
Indices: 38852838--38852897 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
38852828 ACACATATAT
*
38852838 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
38852864 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
38852891 ATATCTG
1 ATATCTG
38852898 GCAGCCTCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:38861018 original size:26 final size:24
Alignment explanation
Indices: 38860954--38861022 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
38860944 GAGTTGAAAT
*
38860954 GGTAGGCTCTAATGAGCTGATAAC
1 GGTAAGCTCTAATGAGCTGATAAC
* *
38860978 AGTAAGCTCTTATGAGCTGATATATC
1 GGTAAGCTCTAATGAGCTGATA-A-C
*
38861004 GGTAAGCTCAAATGAGCTG
1 GGTAAGCTCTAATGAGCTG
38861023 TGATGAGTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
24 19 0.51
25 1 0.03
26 17 0.46
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (24 bp):
GGTAAGCTCTAATGAGCTGATAAC
Found at i:38863499 original size:42 final size:42
Alignment explanation
Indices: 38863450--38863602 Score: 175
Period size: 42 Copynumber: 3.6 Consensus size: 42
38863440 TGAGACTATG
* * *
38863450 TGTAAGACCTTATCTGGGATATGGTATCTATATGAGACTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
* *
38863492 TGTAAGACCATATCTGGGGTATGGCATCGATATGAGACTTTA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
* * * ** *
38863534 TGTAAAACCATAGCTGGGCTATTGGCATCGATACAAGA-TCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGACT-TCA
38863577 TGTAA-ACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
38863603 TGGTATGGTA
Statistics
Matches: 95, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
41 6 0.06
42 69 0.73
43 20 0.21
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
Found at i:38868197 original size:12 final size:12
Alignment explanation
Indices: 38868177--38868208 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
38868167 AGAATTTTTC
*
38868177 CACATGGGTAGA
1 CACACGGGTAGA
38868189 CACACGGGTAGA
1 CACACGGGTAGA
38868201 CACACGGG
1 CACACGGG
38868209 CATGTGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.25, G:0.34, T:0.09
Consensus pattern (12 bp):
CACACGGGTAGA
Found at i:38872901 original size:23 final size:23
Alignment explanation
Indices: 38872832--38872891 Score: 95
Period size: 22 Copynumber: 2.7 Consensus size: 23
38872822 CACCTAAGGA
**
38872832 CTAAAATGGTAAGCTCCGAAGAG
1 CTAAAATGGTAAGCTCAAAAGAG
38872855 CT-AAATGGTAAGCTCAAAAGAG
1 CTAAAATGGTAAGCTCAAAAGAG
38872877 CTAAAATGGTAAGCT
1 CTAAAATGGTAAGCT
38872892 TATACGAGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
22 20 0.59
23 14 0.41
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (23 bp):
CTAAAATGGTAAGCTCAAAAGAG
Found at i:38893016 original size:43 final size:43
Alignment explanation
Indices: 38892927--38893029 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 43
38892917 CAATGCTAAC
* * * * * *
38892927 GTCCCAAACGTGGTCTTACATGTAATTCAATATTGAAGCCTCT
1 GTCCCAGACATGGTCTTACACGAAATTCAATATCGAAGCCTAT
* *
38892970 GTCCCAGATATGGTCTTACACGAAATCTCAA-ATCGAGGCCTAT
1 GTCCCAGACATGGTCTTACACGAAAT-TCAATATCGAAGCCTAT
*
38893013 GTCCCAGACACGGTCTT
1 GTCCCAGACATGGTCTT
38893030 GCACAATATC
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
43 45 0.92
44 4 0.08
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAATTCAATATCGAAGCCTAT
Found at i:38896275 original size:19 final size:18
Alignment explanation
Indices: 38896236--38896278 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
38896226 CTTTATTATG
*
38896236 TTTTTGTATTTTAGCATA
1 TTTTTGTATTGTAGCATA
38896254 TTTTATGTATTGTAGC-TGA
1 TTTT-TGTATTGTAGCAT-A
38896273 TTTTTG
1 TTTTTG
38896279 AATCATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.19, C:0.05, G:0.16, T:0.60
Consensus pattern (18 bp):
TTTTTGTATTGTAGCATA
Found at i:38896521 original size:64 final size:66
Alignment explanation
Indices: 38896441--38896563 Score: 169
Period size: 64 Copynumber: 1.9 Consensus size: 66
38896431 AGACATTATG
* * * *
38896441 ATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCATGTAGACAAGAGAGCTATGGGATA
1 ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTAGACAAGAGAGCTATGGGATA
38896504 T
66 T
* *
38896505 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTA
1 ATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGTAGACAAGAGAGCTA
38896564 CGAGATAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
64 24 0.48
66 2 0.04
67 24 0.48
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (66 bp):
ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTAGACAAGAGAGCTATGGGATA
T
Found at i:38900982 original size:21 final size:22
Alignment explanation
Indices: 38900956--38900996 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
38900946 CATTTGACAC
38900956 AGGGGC-ACACGCCCGTGTGGA
1 AGGGGCAACACGCCCGTGTGGA
*
38900977 AGGGGCAACACGCCCTTGTG
1 AGGGGCAACACGCCCGTGTG
38900997 ATCAATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.20, C:0.29, G:0.39, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGA
Found at i:38909538 original size:46 final size:46
Alignment explanation
Indices: 38909471--38909642 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
38909461 AACCCGCACC
*
38909471 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
38909517 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
38909565 TCA-CGAACTCGGACTCAACTCAACGA-TTCGAGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG-GGCGTTCGCATCCA
38909610 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
38909643 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 9, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 59 0.56
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:38909583 original size:93 final size:93
Alignment explanation
Indices: 38909476--38909646 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
38909466 GCACCTAAGT
* *
38909476 GAACTCGGACTCAACTCAACGAGCTCG-GGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGA-CTCGAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
38909540 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
*
38909569 GAACTCGGACTCAACTCAACGATTCGAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGACTCGAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38909634 CGAGTTCGGATGC
66 CGAGTTCGGATGC
38909647 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 3 0.04
93 71 0.96
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGACTCGAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:38915320 original size:39 final size:39
Alignment explanation
Indices: 38915266--38915344 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
38915256 ATTTTCAAGC
38915266 CAGAACTCTGCTTTCTCTGCATCATCATCAATATTTGCT
1 CAGAACTCTGCTTTCTCTGCATCATCATCAATATTTGCT
38915305 CAGAACTCTGCTTTCTCTGCATCATCATCAATATTTGCT
1 CAGAACTCTGCTTTCTCTGCATCATCATCAATATTTGCT
38915344 C
1 C
38915345 TAAATTCTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.23, C:0.29, G:0.10, T:0.38
Consensus pattern (39 bp):
CAGAACTCTGCTTTCTCTGCATCATCATCAATATTTGCT
Found at i:38917171 original size:46 final size:46
Alignment explanation
Indices: 38917104--38917276 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
38917094 AACCCGCCCC
* * *
38917104 TAAGTGAACTCGGACTGAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
* *
38917150 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG---GAC--GTTCGCATCCA
* * *
38917198 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
*
38917243 TAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38917277 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 1 0.01
46 59 0.56
47 27 0.25
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
Found at i:38917218 original size:93 final size:93
Alignment explanation
Indices: 38917109--38917279 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
38917099 GCCCCTAAGT
* * *
38917109 GAACTCGGACTGAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38917174 CGAGTTCGAATGCCTAGTTACATCTCAC
66 CGAGTTCGAATGCCTAGTTACATCTCAC
* *
38917202 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
38917267 CGAGTTCGGATGC
66 CGAGTTCGAATGC
38917280 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCTAGTTACATCTCAC
Found at i:38920837 original size:42 final size:42
Alignment explanation
Indices: 38920734--38920849 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 42
38920724 TACAATGCCA
*
38920734 ATGTCCCAGACATGGTCTTACATGTAATCAAATATCAATGTC
1 ATGTCCCAGACATGGTCTTACATGAAATCAAATATCAATGTC
* * * * * *
38920776 ATTATCCCAAATAGGGTCTTACATGAAATCAATTA-CGATGTC
1 A-TGTCCCAGACATGGTCTTACATGAAATCAAATATCAATGTC
* *
38920818 GATGTCCTAGACATGGTCTTACACGTAAATCA
1 -ATGTCCCAGACATGGTCTTACATG-AAATCA
38920850 TAAGTCGATG
Statistics
Matches: 58, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
42 24 0.41
43 34 0.59
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGTCCCAGACATGGTCTTACATGAAATCAAATATCAATGTC
Found at i:38927134 original size:40 final size:40
Alignment explanation
Indices: 38927074--38927153 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
38927064 CATACTCTAT
38927074 CTCTAACTTGGAACTCAATATCTTTTCTTTTCAAATCAGC
1 CTCTAACTTGGAACTCAATATCTTTTCTTTTCAAATCAGC
*
38927114 CTCTAACTTGGAACTTAATATCTTTTCTTTTCAAATCAGC
1 CTCTAACTTGGAACTCAATATCTTTTCTTTTCAAATCAGC
38927154 ATATGACTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.41
Consensus pattern (40 bp):
CTCTAACTTGGAACTCAATATCTTTTCTTTTCAAATCAGC
Found at i:38936608 original size:68 final size:64
Alignment explanation
Indices: 38936461--38936617 Score: 165
Period size: 68 Copynumber: 2.4 Consensus size: 64
38936451 TTCACCTGGA
* * * *
38936461 ACCACGCATGTGACCTAGCTACATATATCTTGTAGCTCTCTTGTCTACATGGTGTACACATAGT
1 ACCACACATGTGACCTAGCTACATATATATTGTAGCTCTCTTGTCTACATGATGTACACATAGC
* * * *
38936525 ATCACCCATGCGACCTAGCTACATCATAATGTATTGTAGCTCTCTTGTAC-ACATGATGTGCAC-
1 ACCACACATGTGACCTAGCTACAT-AT-A--TATTGTAGCTCTCTTGT-CTACATGATGTACACA
38936588 TCAGC
61 T-AGC
*
38936593 ACCATACATGTGACCTAGCTACATA
1 ACCACACATGTGACCTAGCTACATA
38936618 CTATCTGTAT
Statistics
Matches: 76, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
64 21 0.28
65 2 0.03
66 1 0.01
67 2 0.03
68 49 0.64
69 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (64 bp):
ACCACACATGTGACCTAGCTACATATATATTGTAGCTCTCTTGTCTACATGATGTACACATAGC
Found at i:38939204 original size:42 final size:43
Alignment explanation
Indices: 38939090--38939210 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 43
38939080 TTGAAAAGCT
* * *
38939090 TATACAATGCCAACGTCCCAGACATGGTCTTACAT-ATAATCA
1 TATACGATGCCAATGTCCCAAACATGGTCTTACATGATAATCA
* * * * *
38939132 AATATCGATGCCATTATCCCATACAGGGTCTTACATGA-AATCA
1 TATA-CGATGCCAATGTCCCAAACATGGTCTTACATGATAATCA
*
38939175 TATACGATGTCAATGTCCCAAACATGGTCTTACATG
1 TATACGATGCCAATGTCCCAAACATGGTCTTACATG
38939211 TAACAGCTCG
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
42 30 0.47
43 33 0.52
44 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (43 bp):
TATACGATGCCAATGTCCCAAACATGGTCTTACATGATAATCA
Found at i:38945143 original size:26 final size:26
Alignment explanation
Indices: 38945108--38945159 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
38945098 AAATGAAAAG
*
38945108 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
38945134 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
38945160 TTCAGTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:38945178 original size:102 final size:104
Alignment explanation
Indices: 38944926--38945191 Score: 414
Period size: 105 Copynumber: 2.6 Consensus size: 104
38944916 TTGTATATAA
** *
38944926 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
38944990 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAA-GTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
**
38945031 AGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACTGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
38945095 TTGAAA-TGAAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAAGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
38945133 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
38945192 ATAACGGTTA
Statistics
Matches: 149, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
102 58 0.39
103 28 0.19
104 1 0.01
105 61 0.41
106 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAAGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:38947188 original size:22 final size:22
Alignment explanation
Indices: 38947163--38947229 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
38947153 ATTATTTCAT
38947163 AGAAACAGAGTCTTTCATATTC
1 AGAAACAGAGTCTTTCATATTC
*** * *
38947185 AGAAATTCATTATTTC--A-T-
1 AGAAACAGAGTCTTTCATATTC
38947203 AGAAACAGAGTCTTTCATATTC
1 AGAAACAGAGTCTTTCATATTC
38947225 AGAAA
1 AGAAA
38947230 TTTAGTACGA
Statistics
Matches: 31, Mismatches: 10, Indels: 8
0.63 0.20 0.16
Matches are distributed among these distances:
18 11 0.35
19 1 0.03
20 2 0.06
21 1 0.03
22 16 0.52
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (22 bp):
AGAAACAGAGTCTTTCATATTC
Found at i:38947193 original size:40 final size:40
Alignment explanation
Indices: 38947149--38947231 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
38947139 CATACTTCAC
38947149 ATTCATTATTTCATAGAAACAGAGTCTTTCATATTCAGAA
1 ATTCATTATTTCATAGAAACAGAGTCTTTCATATTCAGAA
38947189 ATTCATTATTTCATAGAAACAGAGTCTTTCATATTCAGAA
1 ATTCATTATTTCATAGAAACAGAGTCTTTCATATTCAGAA
38947229 ATT
1 ATT
38947232 TAGTACGATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (40 bp):
ATTCATTATTTCATAGAAACAGAGTCTTTCATATTCAGAA
Found at i:38952822 original size:28 final size:28
Alignment explanation
Indices: 38952790--38952917 Score: 166
Period size: 28 Copynumber: 4.5 Consensus size: 28
38952780 ATAGTAAGTC
38952790 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGTTATATAATCAAACT
*
38952818 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTG-TTATATAATCAAACT
*
38952847 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGTTATATAATCAAACT
* * ** * *
38952875 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGTTATATAA-TCAAACT
38952904 CGCACACTTAGTGT
1 CGCACACTTAGTGT
38952918 CGAAATCAAC
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
28 44 0.50
29 44 0.50
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGTTATATAATCAAACT
Found at i:38952848 original size:29 final size:29
Alignment explanation
Indices: 38952790--38952916 Score: 161
Period size: 29 Copynumber: 4.4 Consensus size: 29
38952780 ATAGTAAGTC
*
38952790 CGCACACTTAGTG-TTATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
38952818 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
*
38952847 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
* * * * *
38952875 TGCACACTTAGTGCTATGCA-ATTTAAACC
1 CGCACACTTAGTGCT-TACATAATCAAACT
38952904 CGCACACTTAGTG
1 CGCACACTTAGTG
38952917 TCGAAATCAA
Statistics
Matches: 87, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
28 39 0.45
29 46 0.53
30 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCAAACT
Found at i:38952880 original size:57 final size:57
Alignment explanation
Indices: 38952789--38952916 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
38952779 TATAGTAAGT
*
38952789 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
38952846 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
38952903 CCGCACACTTAGTG
1 CCGCACACTTAGTG
38952917 TCGAAATCAA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 60 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:38957151 original size:37 final size:37
Alignment explanation
Indices: 38957090--38957168 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
38957080 TTATTACGAA
** * * * *
38957090 GTCTTACCTGGACATAATCTCCACACGAAGTTATCGT
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
*
38957127 GTCTTACCCAGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
38957164 GTCTT
1 GTCTT
38957169 TAGAGCTCGG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:38957365 original size:47 final size:47
Alignment explanation
Indices: 38957287--38957703 Score: 647
Period size: 47 Copynumber: 8.7 Consensus size: 47
38957277 CCCTTCGGGA
* * * * * *
38957287 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38957334 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38957381 CTTATAACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38957428 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38957475 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38957524 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38957573 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
38957620 CTTATCACATATATATACACTTTTACATTCATCACATCGTCCATTAGGT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38957669 CTTATCACATATATACA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
38957704 AAAATCCTAA
Statistics
Matches: 348, Mismatches: 17, Indels: 10
0.93 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 207 0.59
49 140 0.40
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38957516 original size:96 final size:96
Alignment explanation
Indices: 38957287--38957703 Score: 632
Period size: 96 Copynumber: 4.4 Consensus size: 96
38957277 CCCTTCGGGA
* * * * * * * *
38957287 CTTATCAC-ATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC-ATATATAC
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATAC
38957350 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
38957381 CTTATAAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATAC
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATAC
38957444 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
38957475 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATAT
38957540 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
38957573 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATA
* * *
38957637 CACTTTTACATTCATCACATCGTCCATTAGGT
65 CACTTTCACATTCATCACATCGGCCATTAGGC
*
38957669 CTTATCAC-ATATATACA-TGTTCACATCCATCACAT
1 CTTATCACAATATATACACT-TTCACATTCATCACAT
38957704 AAAATCCTAA
Statistics
Matches: 304, Mismatches: 14, Indels: 8
0.93 0.04 0.02
Matches are distributed among these distances:
94 92 0.30
95 1 0.00
96 164 0.54
98 47 0.15
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38961941 original size:42 final size:43
Alignment explanation
Indices: 38961849--38962000 Score: 141
Period size: 42 Copynumber: 3.5 Consensus size: 43
38961839 CAATGTCGAC
* * *
38961849 GTCCCAGAC-GTGGTCTTACATGTAATTCAG-TATCGATGCCTCT
1 GTCCCAGACAG-GGTCTTACACGAAATTCAGATA-CGATGCCTAT
*
38961892 ATCCCAGACAGGGTCTTACACGAAATT-AGATACGATGCCTAT
1 GTCCCAGACAGGGTCTTACACGAAATTCAGATACGATGCCTAT
* * * * *
38961934 GTCCCAGACATGGTCTTACACGTAAATCTCAAAT-CGAGGCATGT
1 GTCCCAGACAGGGTCTTACACG-AAAT-TCAGATACGATGCCTAT
**
38961978 GTCCCAGACACAGTCTTACACGA
1 GTCCCAGACAGGGTCTTACACGA
38962001 TATCTCATAT
Statistics
Matches: 92, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
42 31 0.34
43 29 0.32
44 29 0.32
45 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTACACGAAATTCAGATACGATGCCTAT
Found at i:38971698 original size:90 final size:90
Alignment explanation
Indices: 38971479--38971698 Score: 248
Period size: 90 Copynumber: 2.4 Consensus size: 90
38971469 AATAGGGTGG
* * * *
38971479 CAAAGCCATGT-CCTAGACATGGTCTTACATGGGACCACACATCGATGCCATATCCCAGATATGG
1 CAAAGCCATGTCCCT-GACATGGTCTTACACGGGACCTCATATCGATGCCATATCCCAGACATGG
* * *
38971543 TCTTATATGAAGTCTCGAATCGGTGC
65 TCTTATATGAAATCACGAATCGATGC
* * * *
38971569 CAACGCCATGTCCTTGACATGGTCTTATACGGGACCTCATATCGATGCCATGTCCC-GAACATGG
1 CAAAGCCATGTCCCTGACATGGTCTTACACGGGACCTCATATCGATGCCATATCCCAG-ACATGG
*
38971633 TCTTATATGAAATCACTTAAT-GATGC
65 TCTTATATGAAATCAC-GAATCGATGC
* * * *
38971659 TAAAGCCATATCCCTGATATGGTCTTACACGGGATCTCAT
1 CAAAGCCATGTCCCTGACATGGTCTTACACGGGACCTCAT
38971699 TAATTATGGT
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
89 1 0.01
90 102 0.94
91 5 0.05
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (90 bp):
CAAAGCCATGTCCCTGACATGGTCTTACACGGGACCTCATATCGATGCCATATCCCAGACATGGT
CTTATATGAAATCACGAATCGATGC
Found at i:38973994 original size:51 final size:51
Alignment explanation
Indices: 38973909--38974048 Score: 149
Period size: 51 Copynumber: 2.7 Consensus size: 51
38973899 TGGATGCCCG
*
38973909 GTGGCCTGCACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTT-CACAAA
1 GTGGCCTGCACATAGTACCACACTTGTGA-TCAAAGCTACCTT-TTACACAAA
* * * * **
38973960 GTGGCCTTCACGTAGTACCACACTTGTGACCAAAGCTATCTTTTACACATG
1 GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTACCTTTTACACAAA
** * *
38974011 GTGGCCTGCATTTAGTACCACACATGTGATCGAAGCTA
1 GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTA
38974049 TCGGGTACAC
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
50 2 0.03
51 71 0.96
52 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (51 bp):
GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTACCTTTTACACAAA
Found at i:38974049 original size:51 final size:51
Alignment explanation
Indices: 38973954--38974190 Score: 170
Period size: 51 Copynumber: 4.6 Consensus size: 51
38973944 CTACCTTCTT
* * * * * ***
38973954 CACAAAGTGGCCTTCACGTAGTACCACACTTGTGACCAAAGCTATCTTTTA
1 CACATAGTAGCCTGCACTTAGTACCACACATGTGACCAAAGCTATCGGGTA
* * * * *
38974005 CACATGGTGGCCTGCATTTAGTACCACACATGTGATCGAAGCTATCGGGTA
1 CACATAGTAGCCTGCACTTAGTACCACACATGTGACCAAAGCTATCGGGTA
** * * * *
38974056 CACATAGTAGCCTGCACTTAGTAATACACATGCGACCTAA-CCATCTGGTA
1 CACATAGTAGCCTGCACTTAGTACCACACATGTGACCAAAGCTATCGGGTA
* * * * * * *****
38974106 CACGTAATAGCCTGCACTTAGTACTACACATGAGACCTAAAACCATTTTAAA
1 CACATAGTAGCCTGCACTTAGTACCACACATGTGACC-AAAGCTATCGGGTA
* *
38974158 CACATAGTAGCCTGCACATAGTACTACACATGT
1 CACATAGTAGCCTGCACTTAGTACCACACATGT
38974191 TTTCTCACAA
Statistics
Matches: 150, Mismatches: 34, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
50 41 0.27
51 74 0.49
52 35 0.23
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (51 bp):
CACATAGTAGCCTGCACTTAGTACCACACATGTGACCAAAGCTATCGGGTA
Found at i:38974174 original size:52 final size:50
Alignment explanation
Indices: 38974055--38974189 Score: 171
Period size: 52 Copynumber: 2.7 Consensus size: 50
38974045 GCTATCGGGT
* * **
38974055 ACACATAGTAGCCTGCACTTAGTAATACACATGCGACCTAACCATCTGGT
1 ACACATAGTAGCCTGCACTTAGTACTACACATGAGACCTAACCATCTGAA
* * * *
38974105 ACACGTAATAGCCTGCACTTAGTACTACACATGAGACCTAAAACCATTTTAA
1 ACACATAGTAGCCTGCACTTAGTACTACACATGAGACCT--AACCATCTGAA
*
38974157 ACACATAGTAGCCTGCACATAGTACTACACATG
1 ACACATAGTAGCCTGCACTTAGTACTACACATG
38974190 TTTTCTCACA
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
50 35 0.49
52 37 0.51
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.24
Consensus pattern (50 bp):
ACACATAGTAGCCTGCACTTAGTACTACACATGAGACCTAACCATCTGAA
Found at i:38979589 original size:39 final size:40
Alignment explanation
Indices: 38979488--38979711 Score: 246
Period size: 39 Copynumber: 5.7 Consensus size: 40
38979478 TTGAATGATG
* *
38979488 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
38979527 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
38979568 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
38979607 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * * *
38979646 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTA-TTAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
38979685 AACCGGGCTATGTCCCGAGGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
38979712 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
39 76 0.47
40 73 0.45
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:38979691 original size:79 final size:80
Alignment explanation
Indices: 38979488--38979711 Score: 267
Period size: 79 Copynumber: 2.8 Consensus size: 80
38979478 TTGAATGATG
* * * * *
38979488 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
*
38979552 TGTGCGAGATACTAAT
65 TGTGCGAGATACTAAA
*
38979568 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCATT
*
38979630 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * * * * *
38979646 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTATTATAACCGGGCTATGTCCCGAGGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
38979711 G
66 G
38979712 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 36 0.29
79 56 0.45
80 32 0.26
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:38979718 original size:40 final size:40
Alignment explanation
Indices: 38979488--38979711 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
38979478 TTGAATGATG
* * * *
38979488 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
38979528 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38979568 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
38979607 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
38979646 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
38979687 -CCGGGCTATGTCCCGAGGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38979712 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 74 0.46
40 78 0.48
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38979733 original size:79 final size:79
Alignment explanation
Indices: 38979541--38979744 Score: 209
Period size: 79 Copynumber: 2.6 Consensus size: 79
38979531 GGACTAAGAT
** * * * *
38979541 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
*
38979605 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** * *
38979619 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTA-TT
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
*
38979683 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* * * *
38979699 CCGAGGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGG
38979745 TACATGATTT
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 38 0.35
79 46 0.43
80 24 0.22
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:38982642 original size:15 final size:16
Alignment explanation
Indices: 38982622--38982660 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
38982612 AGTTTTAATA
38982622 TATTTTTAA-AATTTT
1 TATTTTTAATAATTTT
*
38982637 TATTTTTAATGATTTT
1 TATTTTTAATAATTTT
38982653 TAATTTTT
1 T-ATTTTT
38982661 TTATGATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
16 6 0.29
17 6 0.29
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TATTTTTAATAATTTT
Found at i:38982642 original size:25 final size:25
Alignment explanation
Indices: 38982614--38982664 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
38982604 TGGTCACAAG
*
38982614 TTTTAATATATTTTTAAAATTTTTAT
1 TTTTAAT-GATTTTTAAAATTTTTAT
**
38982640 TTTTAATGATTTTTAATTTTTTTAT
1 TTTTAATGATTTTTAAAATTTTTAT
38982665 GATGATTGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (25 bp):
TTTTAATGATTTTTAAAATTTTTAT
Found at i:38984605 original size:21 final size:24
Alignment explanation
Indices: 38984571--38984638 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 24
38984561 ATTAATTCAC
* *
38984571 ATTTAATTAGTATAAATATATA-T
1 ATTTAATAATTATAAATATATATT
38984594 -TTTAA-AATTAT-AATAATATATT
1 ATTTAATAATTATAAAT-ATATATT
*
38984616 ATTTAATAATTAAAAAATATATA
1 ATTTAATAATT-ATAAATATATA
38984639 AAATCTAGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
20 3 0.08
21 9 0.25
22 6 0.17
23 5 0.14
24 4 0.11
25 6 0.17
26 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (24 bp):
ATTTAATAATTATAAATATATATT
Found at i:38984620 original size:23 final size:24
Alignment explanation
Indices: 38984584--38984637 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
38984574 TAATTAGTAT
38984584 AAATATA-TATTTTAA-AATTATAA
1 AAATATATTATTTTAATAATTA-AA
*
38984607 TAATATATTA-TTTAATAATTAAA
1 AAATATATTATTTTAATAATTAAA
38984630 AAATATAT
1 AAATATAT
38984638 AAAATCTAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 20 0.74
24 7 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
AAATATATTATTTTAATAATTAAA
Found at i:38986250 original size:17 final size:18
Alignment explanation
Indices: 38986225--38986262 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
38986215 TTCATATTAG
38986225 TTTATTTCCCATATTA-AT
1 TTTATTT-CCATATTATAT
38986243 TTTA-TTCCATATTATAT
1 TTTATTTCCATATTATAT
38986260 TTT
1 TTT
38986263 GCATTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 7 0.37
18 4 0.21
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATTTCCATATTATAT
Found at i:38995467 original size:55 final size:55
Alignment explanation
Indices: 38995381--38995506 Score: 155
Period size: 55 Copynumber: 2.3 Consensus size: 55
38995371 TGAAAGCCCC
** * * *
38995381 ACGCCCGTGTTAATTTAATAGGTTCGACCACGGGTGTTCCACA-AGGGCATGTCGA
1 ACGCCCGTGTTGTTTTAACAGGTTCGACCACGAGTCTTCCACACA-GGCATGTCGA
* * * *
38995436 ATGCCCGTGTTGTTTTAACAGGTTCGCCCACGATTCTTCCACACAGGCATGTCGG
1 ACGCCCGTGTTGTTTTAACAGGTTCGACCACGAGTCTTCCACACAGGCATGTCGA
38995491 ACGCCCGTGTTGTTTT
1 ACGCCCGTGTTGTTTT
38995507 GGAAGGCTTG
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
55 59 0.98
56 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.25, T:0.29
Consensus pattern (55 bp):
ACGCCCGTGTTGTTTTAACAGGTTCGACCACGAGTCTTCCACACAGGCATGTCGA
Found at i:39001944 original size:40 final size:40
Alignment explanation
Indices: 39001904--39002064 Score: 200
Period size: 40 Copynumber: 4.0 Consensus size: 40
39001894 TAATTGATTT
* * * * *
39001904 AGGGTTACCAAAGAACAAACAAGGGCATGTATGTGCATTT
1 AGGGATACCAAAGTACAAACAGGGGCACGTATGTGCATTC
* *
39001944 AGGGATATTC-AAGTACAAATAGGGGCACGTATGTGCATTC
1 AGGGATA-CCAAAGTACAAACAGGGGCACGTATGTGCATTC
*
39001984 AGCGG-TACAAAAGTACAAACAGGGGCACGTATGTGCATTC
1 AG-GGATACCAAAGTACAAACAGGGGCACGTATGTGCATTC
* *
39002024 AGGGATACTAAAGTACAAACAGGGGCACATATGTGCATTC
1 AGGGATACCAAAGTACAAACAGGGGCACGTATGTGCATTC
39002064 A
1 A
39002065 AACAATATTT
Statistics
Matches: 105, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
39 2 0.02
40 100 0.95
41 3 0.03
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (40 bp):
AGGGATACCAAAGTACAAACAGGGGCACGTATGTGCATTC
Found at i:39002051 original size:80 final size:80
Alignment explanation
Indices: 39001913--39002064 Score: 232
Period size: 80 Copynumber: 1.9 Consensus size: 80
39001903 TAGGGTTACC
* * * * * *
39001913 AAAGAACAAACAAGGGCATGTATGTGCATTTAGGGATATTCAAGTACAAATAGGGGCACGTATGT
1 AAAGAACAAACAAGGGCACGTATGTGCATTCAGGGATACTAAAGTACAAACAGGGGCACATATGT
39001978 GCATTCAGCGGTACA
66 GCATTCAGCGGTACA
* *
39001993 AAAGTACAAACAGGGGCACGTATGTGCATTCAGGGATACTAAAGTACAAACAGGGGCACATATGT
1 AAAGAACAAACAAGGGCACGTATGTGCATTCAGGGATACTAAAGTACAAACAGGGGCACATATGT
39002058 GCATTCA
66 GCATTCA
39002065 AACAATATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (80 bp):
AAAGAACAAACAAGGGCACGTATGTGCATTCAGGGATACTAAAGTACAAACAGGGGCACATATGT
GCATTCAGCGGTACA
Found at i:39012838 original size:40 final size:40
Alignment explanation
Indices: 39012783--39013000 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
39012773 TGGATGATAA
* * *
39012783 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
39012823 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
39012863 CCGGGCTAAGGCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
39012903 CCGGGCTAAGTCCCGAAGGCATTGGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
39012943 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* * *
39012983 TC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
39013001 TACTTGGCTT
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 16 0.10
40 145 0.90
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:39018236 original size:104 final size:104
Alignment explanation
Indices: 39018056--39018279 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
39018046 TGTATATAAA
** * *
39018056 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
39018121 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
39018160 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
39018224 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
39018264 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
39018280 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:39018331 original size:71 final size:72
Alignment explanation
Indices: 39018198--39018349 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
39018188 TCATTGGTGG
* *
39018198 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
39018263 GAGGGGT
66 GAGGGGT
***
39018270 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
39018334 GAGGGGT
66 GAGGGGT
39018341 TGCTAAGTG
1 TGCTAAGTG
39018350 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:39025545 original size:26 final size:26
Alignment explanation
Indices: 39025510--39025560 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
39025500 AATGTGAAAG
*
39025510 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
39025536 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
39025561 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:39025572 original size:103 final size:104
Alignment explanation
Indices: 39025432--39025654 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
39025422 TGTATATAAA
** * *
39025432 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
39025496 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
39025535 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
39025600 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
39025639 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
39025655 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 90 0.80
104 22 0.20
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:39025706 original size:71 final size:72
Alignment explanation
Indices: 39025573--39025724 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
39025563 TCATTGGTGG
* *
39025573 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
39025638 GAGGGGT
66 GAGGGGT
***
39025645 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
39025709 GAGGGGT
66 GAGGGGT
39025716 TGCTAAGTG
1 TGCTAAGTG
39025725 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:39040303 original size:43 final size:43
Alignment explanation
Indices: 39040230--39040400 Score: 229
Period size: 43 Copynumber: 4.0 Consensus size: 43
39040220 ACAATAGCTC
* * * *
39040230 ATACAATGCC-ATATCCTAGATATGGTCTTACATGTTATCAC-
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
* * *
39040271 ATATCAATGCCACTGTCCCAGACAGGGTCTTACATGAAATCACA
1 ATA-CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
* * *
39040315 ATACGATGCCAATGTCCCAAACATGGTCTTACATGTAATCATA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
39040358 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
39040401 TCTCGATATC
Statistics
Matches: 111, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
41 3 0.03
42 7 0.06
43 98 0.88
44 3 0.03
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (43 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
Found at i:39040718 original size:21 final size:21
Alignment explanation
Indices: 39040668--39040710 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
39040658 TTTGTTCTTG
39040668 ATCTATTTACATTGAAAATTA
1 ATCTATTTACATTGAAAATTA
39040689 ATCTATTTACATTGAAAATTA
1 ATCTATTTACATTGAAAATTA
39040710 A
1 A
39040711 CTCGTTTATT
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:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (21 bp):
ATCTATTTACATTGAAAATTA
Found at i:39043996 original size:18 final size:18
Alignment explanation
Indices: 39043970--39044010 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
39043960 CCGTTTTGCG
39043970 GCCCATGTGGGCCCACAT-
1 GCCCATGT-GGCCCACATA
*
39043988 GCCCTTGTGGCCCACATA
1 GCCCATGTGGCCCACATA
39044006 GCCCA
1 GCCCA
39044011 AAAATGGCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.17, C:0.41, G:0.24, T:0.17
Consensus pattern (18 bp):
GCCCATGTGGCCCACATA
Found at i:39052049 original size:43 final size:43
Alignment explanation
Indices: 39051981--39052135 Score: 204
Period size: 43 Copynumber: 3.6 Consensus size: 43
39051971 TAAGGATACT
* * *
39051981 CAGATATGGTCTTACATGTTATCAC-ATATCGATGCCACTGTCC
1 CAGACATGGTCTTACATGTAATCACAATA-CGATGCCAATGTCC
* *
39052024 CAGACAGGGTCTTACATGAAATCACAATACGATGCCAATGTCC
1 CAGACATGGTCTTACATGTAATCACAATACGATGCCAATGTCC
* * * *
39052067 CAGACATGGTCTTACACGTAATCATAATACAATGCCAGTGTCC
1 CAGACATGGTCTTACATGTAATCACAATACGATGCCAATGTCC
*
39052110 TAGACATGGTCTTACATGTAATCACA
1 CAGACATGGTCTTACATGTAATCACA
39052136 TCTCGATAAC
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 94 0.97
44 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (43 bp):
CAGACATGGTCTTACATGTAATCACAATACGATGCCAATGTCC
Found at i:39055035 original size:40 final size:39
Alignment explanation
Indices: 39054971--39055182 Score: 255
Period size: 40 Copynumber: 5.3 Consensus size: 39
39054961 TCTTCGGAAT
* *
39054971 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
39055010 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
39055050 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCAGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
39055090 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
39055130 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
39055170 TTAGCCCGGATAT
1 TTAGCCCGGATAT
39055183 CATTCAAATG
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
39 10 0.07
40 129 0.88
41 7 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:39055098 original size:80 final size:80
Alignment explanation
Indices: 39054971--39055182 Score: 336
Period size: 80 Copynumber: 2.7 Consensus size: 80
39054961 TCTTCGGAAT
* * * * *
39054971 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
39055035 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* * *
39055050 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCAGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
39055115 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
39055130 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
39055183 CATTCAAATG
Statistics
Matches: 120, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 4 0.03
80 116 0.97
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:39058884 original size:42 final size:42
Alignment explanation
Indices: 39058805--39058886 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
39058795 GGCGCATGGG
* *
39058805 ACACATGGCTAGAACACATGCGCATGGGGCAAGCCGTGTGTC
1 ACACATGGCTAGAACACATGCCCATGGGGCAACCCGTGTGTC
* * *
39058847 ACACATGGCTTAG-ACACATGCCCATGTGTCTACCCGTGTG
1 ACACATGGC-TAGAACACATGCCCATGGGGCAACCCGTGTG
39058887 GACAAAAGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 31 0.91
43 3 0.09
ACGTcount: A:0.24, C:0.28, G:0.27, T:0.21
Consensus pattern (42 bp):
ACACATGGCTAGAACACATGCCCATGGGGCAACCCGTGTGTC
Found at i:39065179 original size:48 final size:48
Alignment explanation
Indices: 39065108--39065229 Score: 199
Period size: 48 Copynumber: 2.5 Consensus size: 48
39065098 GCCTCAAGCT
* * *
39065108 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAACGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACAATACC
*
39065156 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATACC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACAATACC
*
39065204 AATGCCATGTCCCAGACATGGTCTTA
1 GATGCCATGTCCCAGACATGGTCTTA
39065230 TACGGGATCA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACAATACC
Found at i:39065284 original size:42 final size:42
Alignment explanation
Indices: 39065109--39065284 Score: 147
Period size: 48 Copynumber: 3.9 Consensus size: 42
39065099 CCTCAAGCTG
* * *
39065109 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAACGATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACAC--GGTCAC---AC-ATGCCA
*
39065157 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATACCA
1 ATGCCATGTCCCAGACATGGTCTTACAC-GG-TCAC---AC-ATGCCA
* *
39065205 ATGCCATGTCCCAGACATGGTCTTATACGG-GATCACATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACGGTCA-CACATGCCA
* * *
39065247 ATGCCATATCCCAGATATGGTCTTACACGGTTACACAT
1 ATGCCATGTCCCAGACATGGTCTTACACGGTCACACAT
39065285 ATTGCCATGG
Statistics
Matches: 112, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
42 37 0.33
43 3 0.03
45 1 0.01
46 1 0.01
47 3 0.03
48 67 0.60
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGGTCACACATGCCA
Found at i:39068644 original size:37 final size:37
Alignment explanation
Indices: 39068594--39068690 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
39068584 TACTTGATGT
*
39068594 CATAGTCCAACTATGGTCTTACACAAAATCACAATGC
1 CATAGCCCAACTATGGTCTTACACAAAATCACAATGC
**** * *
39068631 CATAGCCCAACTATGGTCTTACATGTCATTACGATGC
1 CATAGCCCAACTATGGTCTTACACAAAATCACAATGC
*
39068668 CATAGCCCAGCTATGGTCTTACA
1 CATAGCCCAACTATGGTCTTACA
39068691 ATCCATACTT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (37 bp):
CATAGCCCAACTATGGTCTTACACAAAATCACAATGC
Found at i:39070881 original size:18 final size:18
Alignment explanation
Indices: 39070860--39070895 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
39070850 TTATGGTAGC
39070860 CGAATGTGGCTTGGTACT
1 CGAATGTGGCTTGGTACT
39070878 CGAATGTGGCTTGGTACT
1 CGAATGTGGCTTGGTACT
39070896 AATGTGATTA
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:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (18 bp):
CGAATGTGGCTTGGTACT
Found at i:39070901 original size:16 final size:17
Alignment explanation
Indices: 39070862--39070901 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
39070852 ATGGTAGCCG
39070862 AATGTGGCTTGGTACTC
1 AATGTGGCTTGGTACTC
39070879 GAATGTGGCTTGGTACT-
1 -AATGTGGCTTGGTACTC
39070896 AATGTG
1 AATGTG
39070902 ATTAAATGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 6 0.27
18 16 0.73
ACGTcount: A:0.20, C:0.12, G:0.33, T:0.35
Consensus pattern (17 bp):
AATGTGGCTTGGTACTC
Done.