Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 156 of 171
Found at i:46645692 original size:17 final size:15
Alignment explanation
Indices: 46645670--46645708 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 15
46645660 TTAAAATCTT
46645670 ATATTATTTCCAATAGA
1 ATATTATTTCC-ATA-A
46645687 ATATTAATTTCCATAA
1 ATATT-ATTTCCATAA
46645703 ATATTA
1 ATATTA
46645709 ACTCTGGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 6 0.29
17 8 0.38
18 6 0.29
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.44
Consensus pattern (15 bp):
ATATTATTTCCATAA
Found at i:46645707 original size:16 final size:18
Alignment explanation
Indices: 46645670--46645709 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
46645660 TTAAAATCTT
46645670 ATATT-ATTTCCAATAGA
1 ATATTAATTTCCAATAGA
46645687 ATATTAATTTCC-ATA-A
1 ATATTAATTTCCAATAGA
46645703 ATATTAA
1 ATATTAA
46645710 CTCTGGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.36
17 8 0.36
18 6 0.27
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (18 bp):
ATATTAATTTCCAATAGA
Found at i:46647066 original size:29 final size:29
Alignment explanation
Indices: 46646960--46647066 Score: 126
Period size: 29 Copynumber: 3.7 Consensus size: 29
46646950 TAGGTGCTAG
* * *
46646960 TGATTACAGTTCCAGGTACTATGTACTGG
1 TGATTACAGTTCTAGGTACTATGTACCGA
* *
46646989 TGATTACAATTCTAGGTATTATGTACCGA
1 TGATTACAGTTCTAGGTACTATGTACCGA
* *
46647018 TGATTACAGTTCGAGCTACTATGTACCGA
1 TGATTACAGTTCTAGGTACTATGTACCGA
*
46647047 TG-TTACAGTTTTTAGGTACT
1 TGATTACAG-TTCTAGGTACT
46647067 CTATGTGACA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
28 6 0.09
29 59 0.91
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (29 bp):
TGATTACAGTTCTAGGTACTATGTACCGA
Found at i:46647774 original size:32 final size:32
Alignment explanation
Indices: 46647736--46647932 Score: 180
Period size: 32 Copynumber: 6.2 Consensus size: 32
46647726 AATCTGTTCG
* *
46647736 CATATAAGCAGTTTGCATATAAACAATTTAGT
1 CATATAAACAGTTTGCATATAAACAGTTTAGT
* * * *
46647768 CATATAAATAGTTCGCATATAAATACTTTAGT
1 CATATAAACAGTTTGCATATAAACAGTTTAGT
* *
46647800 GATATAAACAGTTAGCATATAAACAGTTTAGT
1 CATATAAACAGTTTGCATATAAACAGTTTAGT
* * * *
46647832 GATATAAATAGTTTGTATATAAATAGTTTAGT
1 CATATAAACAGTTTGCATATAAACAGTTTAGT
** * * *
46647864 GGTATAAATAGTTCG-ATATAAATAGTTTAGT
1 CATATAAACAGTTTGCATATAAACAGTTTAGT
* * * * *
46647895 GATATAAATAGTTCGTATATAAATAGTTTAGT
1 CATATAAACAGTTTGCATATAAACAGTTTAGT
*
46647927 GATATA
1 CATATA
46647933 TTGGCAAACG
Statistics
Matches: 147, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
31 30 0.20
32 117 0.80
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.38
Consensus pattern (32 bp):
CATATAAACAGTTTGCATATAAACAGTTTAGT
Found at i:46647790 original size:15 final size:15
Alignment explanation
Indices: 46647689--46647922 Score: 114
Period size: 15 Copynumber: 15.1 Consensus size: 15
46647679 GCCTAACAGA
*
46647689 TCGCACATAAATAGT
1 TCGCATATAAATAGT
*
46647704 TCGCATA-CAATAGT
1 TCGCATATAAATAGT
* *
46647718 TCACATAT-AATCTGT
1 TCGCATATAAAT-AGT
**
46647733 TCGCATATAAGCAGT
1 TCGCATATAAATAGT
* * *
46647748 TTGCATATAAACAATT
1 TCGCATATAAA-TAGT
*
46647764 TAGTCATATAAATAGT
1 TCG-CATATAAATAGT
*
46647780 TCGCATATAAATACTT
1 TCGCATATAAATA-GT
* * *
46647796 TAGTGATATAAACAGT
1 TCG-CATATAAATAGT
* *
46647812 TAGCATATAAACAGTT
1 TCGCATATAAATAG-T
* *
46647828 TAGTGATATAAATAGT
1 TCG-CATATAAATAGT
* *
46647844 TTGTATATAAATAGTT
1 TCGCATATAAATAG-T
* **
46647860 TAGTGGTATAAATAGT
1 TCG-CATATAAATAGT
46647876 TCG-ATATAAATAGTT
1 TCGCATATAAATAG-T
* *
46647891 TAGTGATATAAATAGT
1 TCG-CATATAAATAGT
*
46647907 TCGTATATAAATAGT
1 TCGCATATAAATAGT
46647922 T
1 T
46647923 TAGTGATATA
Statistics
Matches: 171, Mismatches: 34, Indels: 28
0.73 0.15 0.12
Matches are distributed among these distances:
14 24 0.14
15 71 0.42
16 32 0.19
17 44 0.26
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (15 bp):
TCGCATATAAATAGT
Found at i:46647844 original size:17 final size:17
Alignment explanation
Indices: 46647752--46647932 Score: 177
Period size: 17 Copynumber: 11.3 Consensus size: 17
46647742 AGCAGTTTGC
* * *
46647752 ATATAAACAATTTAGTC
1 ATATAAATAGTTTAGTG
* *
46647769 ATATAAATAG-TTCG-C
1 ATATAAATAGTTTAGTG
*
46647784 ATATAAATACTTTAGTG
1 ATATAAATAGTTTAGTG
* *
46647801 ATATAAACAG-TTAG-C
1 ATATAAATAGTTTAGTG
*
46647816 ATATAAACAGTTTAGTG
1 ATATAAATAGTTTAGTG
46647833 ATATAAATAGTTT-GT-
1 ATATAAATAGTTTAGTG
46647848 ATATAAATAGTTTAGTG
1 ATATAAATAGTTTAGTG
* *
46647865 GTATAAATAG-TT--CG
1 ATATAAATAGTTTAGTG
46647879 ATATAAATAGTTTAGTG
1 ATATAAATAGTTTAGTG
*
46647896 ATATAAATAG-TTCGT-
1 ATATAAATAGTTTAGTG
46647911 ATATAAATAGTTTAGTG
1 ATATAAATAGTTTAGTG
46647928 ATATA
1 ATATA
46647933 TTGGCAAACG
Statistics
Matches: 136, Mismatches: 17, Indels: 22
0.78 0.10 0.13
Matches are distributed among these distances:
14 10 0.07
15 45 0.33
16 28 0.21
17 53 0.39
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (17 bp):
ATATAAATAGTTTAGTG
Found at i:46647913 original size:63 final size:64
Alignment explanation
Indices: 46647737--46647932 Score: 286
Period size: 64 Copynumber: 3.1 Consensus size: 64
46647727 ATCTGTTCGC
* * * * * *
46647737 ATATAAGCAGTTTGCATATAAACAATTTAGTCATATAAATAGTTCGCATATAAATACTTTAGTG
1 ATATAAACAGTTAGCATATAAACAGTTTAGTGATATAAATAGTTCGTATATAAATAGTTTAGTG
*
46647801 ATATAAACAGTTAGCATATAAACAGTTTAGTGATATAAATAGTTTGTATATAAATAGTTTAGTG
1 ATATAAACAGTTAGCATATAAACAGTTTAGTGATATAAATAGTTCGTATATAAATAGTTTAGTG
* * * *
46647865 GTATAAATAGTTCG-ATATAAATAGTTTAGTGATATAAATAGTTCGTATATAAATAGTTTAGTG
1 ATATAAACAGTTAGCATATAAACAGTTTAGTGATATAAATAGTTCGTATATAAATAGTTTAGTG
46647928 ATATA
1 ATATA
46647933 TTGGCAAACG
Statistics
Matches: 119, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
63 51 0.43
64 68 0.57
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (64 bp):
ATATAAACAGTTAGCATATAAACAGTTTAGTGATATAAATAGTTCGTATATAAATAGTTTAGTG
Found at i:46649555 original size:21 final size:22
Alignment explanation
Indices: 46649516--46649558 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
46649506 AGTTCAAAAA
46649516 CTGTGCAGATTTCTACTGATAC
1 CTGTGCAGATTTCTACTGATAC
46649538 CTGTGCA-AGTTT-TACTGATAC
1 CTGTGCAGA-TTTCTACTGATAC
46649559 AAGTGTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (22 bp):
CTGTGCAGATTTCTACTGATAC
Found at i:46651278 original size:27 final size:25
Alignment explanation
Indices: 46651234--46651286 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
46651224 TTTTATTATT
**
46651234 TTTACCTATTTTTACTTAATTACTAAA
1 TTTACCTATTTACACTT-ATTA-TAAA
*
46651261 TTTACCTATTTACCCTTATTATAAA
1 TTTACCTATTTACACTTATTATAAA
46651286 T
1 T
46651287 CATCAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 4 0.17
27 14 0.61
ACGTcount: A:0.32, C:0.17, G:0.00, T:0.51
Consensus pattern (25 bp):
TTTACCTATTTACACTTATTATAAA
Found at i:46655873 original size:21 final size:21
Alignment explanation
Indices: 46655820--46655885 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
46655810 TTCAAAAATT
**
46655820 GTGCAGATTTCTACCGATACCT
1 GTGCA-ATTTCTACCGATACAA
*
46655842 GTGCAAGTTCTACCGATACAA
1 GTGCAATTTCTACCGATACAA
* *
46655863 GTGTAATTTCTACCAATACAA
1 GTGCAATTTCTACCGATACAA
46655884 GT
1 GT
46655886 CATGCAACTA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
21 33 0.87
22 5 0.13
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (21 bp):
GTGCAATTTCTACCGATACAA
Found at i:46655993 original size:24 final size:22
Alignment explanation
Indices: 46655942--46656018 Score: 79
Period size: 21 Copynumber: 3.5 Consensus size: 22
46655932 CCTGCAACTT
*
46655942 CTACCGATACTTGCAT-ACA-AA
1 CTACCGATACAT-CATAACATAA
46655963 CTACCGATACATCAATACACATAA
1 CTACCGATACATC-ATA-ACATAA
* *
46655987 CTACCGATAC-TCGTAACCTAA
1 CTACCGATACATCATAACATAA
46656008 CTACCGATACA
1 CTACCGATACA
46656019 ACTCAAGTCA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.02
21 28 0.58
22 2 0.04
23 5 0.10
24 12 0.25
ACGTcount: A:0.39, C:0.31, G:0.08, T:0.22
Consensus pattern (22 bp):
CTACCGATACATCATAACATAA
Found at i:46660935 original size:30 final size:30
Alignment explanation
Indices: 46660901--46661436 Score: 514
Period size: 29 Copynumber: 18.2 Consensus size: 30
46660891 GGTCAAAACA
* *
46660901 TAATTTTAGAAAAGTTTAAGGGTAAAAATG
1 TAATTTTGGAAAAGTTTAAGGGTTAAAATG
* *
46660931 TAATTTTGGAAAAGTTT-GGGGTCAAAATG
1 TAATTTTGGAAAAGTTTAAGGGTTAAAATG
* *
46660960 TGATTTTGGAAAAGTTT-AGAGTTAAAATG
1 TAATTTTGGAAAAGTTTAAGGGTTAAAATG
* *
46660989 TGATTTTGGAGAAGTTT-AGGGTTAAAATG
1 TAATTTTGGAAAAGTTTAAGGGTTAAAATG
* * *
46661018 TGATTTT-GAGAAGGTTTAGGGGTTAAAATG
1 TAATTTTGGA-AAAGTTTAAGGGTTAAAATG
* *
46661048 TGATTTT-AAAGAAGTTTAA-GGTTAAAATG
1 TAATTTTGGAA-AAGTTTAAGGGTTAAAATG
* * * *
46661077 TGA-TTT-GAGAAGGTTT-GGGGTTAAAATT
1 TAATTTTGGA-AAAGTTTAAGGGTTAAAATG
* * * *
46661105 TGATTTTAGAGAAGTTTAGGGGTTAAAATG
1 TAATTTTGGAAAAGTTTAAGGGTTAAAATG
*
46661135 TAATTTT-GAAAAGTTTAAGGGTTAACATG
1 TAATTTTGGAAAAGTTTAAGGGTTAAAATG
* **
46661164 TAATTTTGGAAAAGCTCGAGGGTTAAAATG
1 TAATTTTGGAAAAGTTTAAGGGTTAAAATG
* *
46661194 TAATTTTAGAGAAGTTT-AGGGTTTAAAATG
1 TAATTTTGGAAAAGTTTAAGGG-TTAAAATG
* *
46661224 TAATTTTGGAAATGTTTAAGGGTTAAAATC
1 TAATTTTGGAAAAGTTTAAGGGTTAAAATG
*
46661254 TAATTTT-GAAAAGTGTAAGGGTTAAAATG
1 TAATTTTGGAAAAGTTTAAGGGTTAAAATG
* * *
46661283 TAATTTTAGAAAAGTTT-GGGAGCTAAAATG
1 TAATTTTGGAAAAGTTTAAGG-GTTAAAATG
*
46661313 TAATTTTGGAAAAGTTT-AGAGGTCAAAATG
1 TAATTTTGGAAAAGTTTAAG-GGTTAAAATG
* *
46661343 T-ATTTTGG-AAAGTTTAGGGTGTTATAATG
1 TAATTTTGGAAAAGTTTAAGG-GTTAAAATG
* *
46661372 TGATTTTGGGAAAGTTT-AGGGTTAAAATG
1 TAATTTTGGAAAAGTTTAAGGGTTAAAATG
* *
46661401 TTATTTTGGAAAAGTTTAA-GGTCAAAATG
1 TAATTTTGGAAAAGTTTAAGGGTTAAAATG
*
46661430 TGATTTT
1 TAATTTT
46661437 TAAAGTAAAT
Statistics
Matches: 430, Mismatches: 57, Indels: 39
0.82 0.11 0.07
Matches are distributed among these distances:
28 31 0.07
29 209 0.49
30 178 0.41
31 12 0.03
ACGTcount: A:0.36, C:0.01, G:0.25, T:0.37
Consensus pattern (30 bp):
TAATTTTGGAAAAGTTTAAGGGTTAAAATG
Found at i:46660938 original size:58 final size:58
Alignment explanation
Indices: 46660868--46661003 Score: 141
Period size: 58 Copynumber: 2.3 Consensus size: 58
46660858 AAGGGGCCGT
* *
46660868 AAATG-AAGTTTTGGAGAA-TACGTGGTCAAAACATAATTTTAGAAAAGTTTAAGGGTAA
1 AAATGTAA-TTTTGGAGAAGTACGGGGTCAAAACATAATTTTAGAAAAGTTT-AGAGTAA
* ** ** * * *
46660926 AAATGTAATTTTGGAAAAGTTTGGGGTCAAAATGTGATTTTGGAAAAGTTTAGAGTTA
1 AAATGTAATTTTGGAGAAGTACGGGGTCAAAACATAATTTTAGAAAAGTTTAGAGTAA
*
46660984 AAATGTGATTTTGGAGAAGT
1 AAATGTAATTTTGGAGAAGT
46661004 TTAGGGTTAA
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
58 37 0.58
59 27 0.42
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.33
Consensus pattern (58 bp):
AAATGTAATTTTGGAGAAGTACGGGGTCAAAACATAATTTTAGAAAAGTTTAGAGTAA
Found at i:46660966 original size:59 final size:57
Alignment explanation
Indices: 46660903--46661436 Score: 518
Period size: 59 Copynumber: 9.1 Consensus size: 57
46660893 TCAAAACATA
* *
46660903 ATTTTAGAAAAGTTTAAGGGTAAAAATGTAATTTTGGAAAAGTTTGGGGTCAAAATGTG
1 ATTTT-GAAAAGTTT-AGGGTTAAAATGTAATTTTGGAAAAGTTTGGGGTTAAAATGTG
* * * *
46660962 ATTTTGGAAAAGTTTAGAGTTAAAATGTGATTTTGGAGAAGTTTAGGGTTAAAATGTG
1 ATTTT-GAAAAGTTTAGGGTTAAAATGTAATTTTGGAAAAGTTTGGGGTTAAAATGTG
* * * **
46661020 ATTTTGAGAAGGTTTAGGGGTTAAAATGTGATTTT-AAAGAAGTTTAAGGTTAAAATGTG
1 ATTTTGA-AAAGTTTA-GGGTTAAAATGTAATTTTGGAA-AAGTTTGGGGTTAAAATGTG
* * * * * * *
46661079 A-TTTGAGAAGGTTTGGGGTTAAAATTTGATTTTAGAGAAGTTTAGGGGTTAAAATGTA
1 ATTTTGA-AAAGTTTAGGGTTAAAATGTAATTTTGGAAAAGTTT-GGGGTTAAAATGTG
* * * *
46661137 ATTTTGAAAAGTTTAAGGGTTAACATGTAATTTTGGAAAAGCTCGAGGGTTAAAATGTA
1 ATTTTGAAAAGTTT-AGGGTTAAAATGTAATTTTGGAAAAGTTTG-GGGTTAAAATGTG
* * * * *
46661196 ATTTTAGAGAAGTTTAGGGTTTAAAATGTAATTTTGGAAATGTTTAAGGGTTAAAATCTA
1 ATTTT-GAAAAGTTTAGGG-TTAAAATGTAATTTTGGAAAAGTTT-GGGGTTAAAATGTG
* * * *
46661256 ATTTTGAAAAGTGTAAGGGTTAAAATGTAATTTTAGAAAAGTTTGGGAGCTAAAATGTA
1 ATTTTGAAAAGT-TTAGGGTTAAAATGTAATTTTGGAAAAGTTTGGG-GTTAAAATGTG
* *
46661315 ATTTTGGAAAAGTTTAGAGGTCAAAATGT-ATTTTGG-AAAGTTTAGGGTGTTATAATGTG
1 ATTTT-GAAAAGTTTAG-GGTTAAAATGTAATTTTGGAAAAGTTT-GGG-GTTAAAATGTG
* * ** *
46661374 ATTTTGGGAAAGTTTAGGGTTAAAATGTTATTTTGGAAAAGTTTAAGGTCAAAATGTG
1 ATTTT-GAAAAGTTTAGGGTTAAAATGTAATTTTGGAAAAGTTTGGGGTTAAAATGTG
46661432 ATTTT
1 ATTTT
46661437 TAAAGTAAAT
Statistics
Matches: 402, Mismatches: 55, Indels: 37
0.81 0.11 0.07
Matches are distributed among these distances:
57 25 0.06
58 116 0.29
59 186 0.46
60 75 0.19
ACGTcount: A:0.36, C:0.01, G:0.25, T:0.37
Consensus pattern (57 bp):
ATTTTGAAAAGTTTAGGGTTAAAATGTAATTTTGGAAAAGTTTGGGGTTAAAATGTG
Found at i:46663230 original size:85 final size:85
Alignment explanation
Indices: 46663087--46663244 Score: 237
Period size: 85 Copynumber: 1.9 Consensus size: 85
46663077 CTCTCGGTCT
*
46663087 ACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGATTTAATCGACTTCTCTGTATCTCAT
1 ACTTCTCCGTATCTCATCAAGAAGATGACCGCTTCATTGATTTAATCGACTTCTCTGTATCTCAT
*
46663152 CAGGAAGACGAATTTGGTTC
66 CACGAAGACGAATTTGGTTC
* * * * *
46663172 ACTTCTCCGTATCTCATCAGGAAGATGACCTCTTTATTGCTTTGACTC-ACTTCTCTGTATCTCA
1 ACTTCTCCGTATCTCATCAAGAAGATGACCGCTTCATTGATTT-AATCGACTTCTCTGTATCTCA
46663236 TCACGAAGA
65 TCACGAAGA
46663245 TGGGGGTTTG
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
85 62 0.95
86 3 0.05
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (85 bp):
ACTTCTCCGTATCTCATCAAGAAGATGACCGCTTCATTGATTTAATCGACTTCTCTGTATCTCAT
CACGAAGACGAATTTGGTTC
Found at i:46663473 original size:209 final size:209
Alignment explanation
Indices: 46663083--46663532 Score: 583
Period size: 209 Copynumber: 2.2 Consensus size: 209
46663073 TCATCTCTCG
*
46663083 GTCTACTTCTCTGTATCTCATCA-AGAAGATGACCGCTTCATTGATTTAATCGACTTCTCTGTAT
1 GTCTACTTCTCTGTATCTCATCAGA-AAGATGACCGCTTCATTGATTTAATCAACTTCTCTGTAT
* * * *
46663147 CTCATCAGGAAGACGAATTTGGTTCACTTCTCCGTATCTCATCAGGAAGATGACCTCTTTATTGC
65 CTCATCAGGAAGACGAATTTAGTTCACTTCTCCGCATCTCATCAAGAAGATGACCACTTTATTGC
* *
46663212 TTTGACTCACTTCTCTGTATCTCATCACGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTT
130 TTTGACCCACTTCTCTGTATCTCATCACGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTG
46663277 CGCTTC-ATCGATTTA
195 CGCTTCAAT-GATTTA
*
46663292 GTCTACTTCTCTGTATCTCATCAGAAAGATGACTGCATT-ACTTG-TTTCAATCCAACTTCTCTG
1 GTCTACTTCTCTGTATCTCATCAGAAAGATGACCGC-TTCA-TTGATTT-AAT-CAACTTCTCTG
* * * *
46663355 TATCTCATCAGGAAGATGGATTTAGTTTACTTCTCTGCATCTCGA-CAAGAAGATGACCAC-TTA
62 TATCTCATCAGGAAGACGAATTTAGTTCACTTCTCCGCATCTC-ATCAAGAAGATGACCACTTTA
* * * * *
46663418 TTGGTTTGACCCACTTTTTTGTATCTCATTA-GAAAGAT-GGGGTTTGAATTTTCACTCACATTG
126 TTGCTTTGACCCACTTCTCTGTATCTCATCACG-AAGATGGGGGTTTGAAGTTTCACTCACATTG
*
46663481 AGCTGCGCTTCAATGATTTG
190 AGCTGCGCTTCAATGATTTA
* * *
46663501 GTTTACTTATCTGTATCTCATCAGGAAGATGA
1 GTCTACTTCTCTGTATCTCATCAGAAAGATGA
46663533 ATTTGGTCCA
Statistics
Matches: 212, Mismatches: 21, Indels: 16
0.85 0.08 0.06
Matches are distributed among these distances:
209 106 0.50
210 45 0.21
211 60 0.28
212 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (209 bp):
GTCTACTTCTCTGTATCTCATCAGAAAGATGACCGCTTCATTGATTTAATCAACTTCTCTGTATC
TCATCAGGAAGACGAATTTAGTTCACTTCTCCGCATCTCATCAAGAAGATGACCACTTTATTGCT
TTGACCCACTTCTCTGTATCTCATCACGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTGC
GCTTCAATGATTTA
Found at i:46663551 original size:37 final size:37
Alignment explanation
Indices: 46663496--46663566 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
46663486 CGCTTCAATG
**
46663496 ATTTGGTTTACTTATCTGTATCTCATCAGGAAGATGA
1 ATTTGGTCCACTTATCTGTATCTCATCAGGAAGATGA
*
46663533 ATTTGGTCCACTTCTCTGTATCTCATCAGGAAGA
1 ATTTGGTCCACTTATCTGTATCTCATCAGGAAGA
46663567 CGACTGCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.38
Consensus pattern (37 bp):
ATTTGGTCCACTTATCTGTATCTCATCAGGAAGATGA
Found at i:46663645 original size:39 final size:39
Alignment explanation
Indices: 46663585--46663691 Score: 151
Period size: 39 Copynumber: 2.7 Consensus size: 39
46663575 TTATTGCTTA
* *
46663585 GGATGACTGCAATCTACCCCATGATCGGGGTAAAAGATT
1 GGATGGCTGCAATCTGCCCCATGATCGGGGTAAAAGATT
* * * *
46663624 GGGTGGCTGCAATTTGTCCCATGATCGGGGTAAGAGATT
1 GGATGGCTGCAATCTGCCCCATGATCGGGGTAAAAGATT
*
46663663 GGATGGCTGTAATCTGCCCCATGATCGGG
1 GGATGGCTGCAATCTGCCCCATGATCGGG
46663692 AAGATGGTGT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
GGATGGCTGCAATCTGCCCCATGATCGGGGTAAAAGATT
Found at i:46663761 original size:41 final size:40
Alignment explanation
Indices: 46663706--46663835 Score: 199
Period size: 40 Copynumber: 3.2 Consensus size: 40
46663696 TGGTGTGTCC
46663706 TCAATCTGCCCTCTTGATTAGGGGTAAAAGATTGGAATCT
1 TCAATCTGCCCTCTTGATTAGGGGTAAAAGATTGGAATCT
*
46663746 TCAATCTGCCTCTCTTG-TTAGGGGTAAAAGACTGGAATCT
1 TCAATCTGCC-CTCTTGATTAGGGGTAAAAGATTGGAATCT
* * *
46663786 TCAATTTCCCCCTCTTGATTAGGGGTAAAAGATTGAAATCT
1 TCAATCT-GCCCTCTTGATTAGGGGTAAAAGATTGGAATCT
46663827 TCAATCTGC
1 TCAATCTGC
46663836 ACTTTTAATC
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
40 45 0.56
41 35 0.44
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (40 bp):
TCAATCTGCCCTCTTGATTAGGGGTAAAAGATTGGAATCT
Found at i:46664246 original size:98 final size:98
Alignment explanation
Indices: 46664115--46664557 Score: 457
Period size: 98 Copynumber: 4.5 Consensus size: 98
46664105 AACTCTTCAT
* * * * *
46664115 GGTATCGGGTTCG-CAGTTGCAGCCTCAACCTTTCCCATCACAT-TTCATGGAACCAGATTCGCC
1 GGTACCGGGTTCGTC-GTTGCGGCCTCAACCTTTCCCATCAAATCTTCATGGTACCGGATTCGCC
* * *
46664178 ATTGCTACCTCAATCCTCCCCATCAAATCTTCTAA
65 GTTGC-ACCTCAATCCTTCCCATCACATCTTCTAA
* * * * * *
46664213 GATACCGGGTTTGTCGTTGTGGCCTCAACCTTTCCCATCACAT-TTCATGGTACTGGATTCGTCG
1 GGTACCGGGTTCGTCGTTGCGGCCTCAACCTTTCCCATCAAATCTTCATGGTACCGGATTCGCCG
*
46664277 TTGCAACCTCAATCCTTCCTATCACATCTTCTAA
66 TTGC-ACCTCAATCCTTCCCATCACATCTTCTAA
** * * *
46664311 GGTATTGGGTTCGTCGTTGCAGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGATTCACCG
1 GGTACCGGGTTCGTCGTTGCGGCCTCAACCTTTCCCATCAAATCTTCATGGTACCGGATTCGCCG
* * * *
46664376 TTACGGCCTCAATCTTTCCCATCACAT-TTCTGA
66 TTGC-ACCTCAATCCTTCCCATCACATCTTCTAA
* * * * * *
46664409 GGTACCAGGTTCGTTGTTGCGGGCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGTCG
1 GGTACCGGGTTCGTCGTTGCGGCCTCAACCTTTCCCATCAAATCTTCATGGTACCGGATTCGCCG
* *
46664474 TTGCAGCCTCAA-CCTTTCCCGTCACATCTTTTAA
66 TTGCA-CCTCAATCC-TTCCCATCACATCTTCTAA
* * * *
46664508 GGTATCGGGTTCG-CTGTTGTGGCCTCAACCTTTCTCTTCAAATCTTCATG
1 GGTACCGGGTTCGTC-GTTGCGGCCTCAACCTTTCCCATCAAATCTTCATG
46664558 TTTTTTCTCA
Statistics
Matches: 287, Mismatches: 52, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
97 1 0.00
98 198 0.69
99 88 0.31
ACGTcount: A:0.19, C:0.30, G:0.18, T:0.33
Consensus pattern (98 bp):
GGTACCGGGTTCGTCGTTGCGGCCTCAACCTTTCCCATCAAATCTTCATGGTACCGGATTCGCCG
TTGCACCTCAATCCTTCCCATCACATCTTCTAA
Found at i:46664393 original size:49 final size:49
Alignment explanation
Indices: 46664073--46664557 Score: 336
Period size: 49 Copynumber: 9.9 Consensus size: 49
46664063 TAAGGTACTA
* * * * * * *
46664073 GGTTCGTCTTTGCGACCTCAACCTTGCCCTTTAACTCTTCATGGTATCG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCG
* * * * * *
46664122 GGTTCGCAGTTGCAGCCTCAACCTTTCCCATCACAT-TTCATGGAACCA
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCG
* * ** * * * *
46664170 GATTCGCCATTGCTACCTCAATCC-TCCCCATCAAATCTTCTAAGATACCG
1 GGTTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCAAATCTTC-ATGGTACCG
* * * * * *
46664220 GGTTTGTCGTTGTGGCCTCAACCTTTCCCATCACAT-TTCATGGTACTG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCG
* * ** * * **
46664268 GATTCGTCGTTGCAACCTCAATCC-TT-CCTATCACATCTTCTAAGGTATTG
1 GGTTCGCCGTTGCGGCCTCAA-CCTTTCCCT-TCAAATCTTC-ATGGTACCG
* *
46664318 GGTTCGTCGTTGCAGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCG
* * * * * * *
46664367 GATTCACCGTTACGGCCTCAATCTTTCCCATCACAT-TTC-TGAGGTACCA
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT--GGTACCG
** *
46664416 GGTTCGTTGTTGCGGGCTCAACCTTTCCCTTCAAATCTTCATGGTACCG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCG
* * * * * * *
46664465 GGTTCGTCGTTGCAGCCTCAACCTTTCCCGTCACATCTTTTAAGGTATCG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATC-TTCATGGTACCG
* * *
46664515 GGTTCGCTGTTGTGGCCTCAACCTTTCTCTTCAAATCTTCATG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATG
46664558 TTTTTTCTCA
Statistics
Matches: 335, Mismatches: 86, Indels: 30
0.74 0.19 0.07
Matches are distributed among these distances:
47 3 0.01
48 68 0.20
49 152 0.45
50 108 0.32
51 4 0.01
ACGTcount: A:0.18, C:0.31, G:0.17, T:0.34
Consensus pattern (49 bp):
GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCG
Found at i:46664475 original size:197 final size:196
Alignment explanation
Indices: 46664073--46664557 Score: 548
Period size: 197 Copynumber: 2.5 Consensus size: 196
46664063 TAAGGTACTA
* * * * *
46664073 GGTTCGTCTTTGCGACCTCAACCTTGCCCTTTAAC-TCTTC-ATGGTATCGGGTTCGCAGTTGCA
1 GGTTCGTCGTTGCAACCTCAACCTT--CCTATCACATCTTCTAAGGTATCGGGTTCGCAGTTGCA
* * * * *
46664136 GCCTCAACCTTTCCCATCACAT-TTCATGGAACCAGATTCGCCATTGCTACCTCAATCCTCCCCA
64 GCCTCAACCTTTCCCTTCAAATCTTCATGGAACCAGATTCACCATTACGACCTCAATCCTCCCCA
* * * *
46664200 TCAAATCTTCTAAGATACCGGGTTTGTCGTTGTGGCCTCAACCTTTCCCATCACATTTCATGGTA
129 TCAAATCTTCTAAGATACCAGGTTCGTCGTTGCGGCCTCAACCTTTCCCATCAAATTTCATGGTA
*
46664265 CTG
194 CCG
* *
46664268 GATTCGTCGTTGCAACCTCAATCCTTCCTATCACATCTTCTAAGGTATTGGGTTCGTC-GTTGCA
1 GGTTCGTCGTTGCAACCTCAA-CCTTCCTATCACATCTTCTAAGGTATCGGGTTCG-CAGTTGCA
* * * * * *
46664332 GCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGATTCACCGTTACGGCCTCAATCTTTCCCA
64 GCCTCAACCTTTCCCTTCAAATCTTCATGGAACCAGATTCACCATTACGACCTCAATCCTCCCCA
* * * * * *
46664397 TCACAT-TTCTGAGGTACCAGGTTCGTTGTTGCGGGCTCAACCTTTCCCTTCAAATCTTCATGGT
129 TCAAATCTTCTAAGATACCAGGTTCGTCGTTGCGGCCTCAACCTTTCCCATCAAAT-TTCATGGT
46664461 ACCG
193 ACCG
* ** * * **
46664465 GGTTCGTCGTTGCAGCCTCAACCTTTCCCGTCACATCTTTTAAGGTATCGGGTTCGCTGTTGTGG
1 GGTTCGTCGTTGCAACCTCAACC-TTCCTATCACATCTTCTAAGGTATCGGGTTCGCAGTTGCAG
*
46664530 CCTCAACCTTTCTCTTCAAATCTTCATG
65 CCTCAACCTTTCCCTTCAAATCTTCATG
46664558 TTTTTTCTCA
Statistics
Matches: 244, Mismatches: 38, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
194 6 0.02
195 23 0.09
196 86 0.35
197 129 0.53
ACGTcount: A:0.18, C:0.31, G:0.17, T:0.34
Consensus pattern (196 bp):
GGTTCGTCGTTGCAACCTCAACCTTCCTATCACATCTTCTAAGGTATCGGGTTCGCAGTTGCAGC
CTCAACCTTTCCCTTCAAATCTTCATGGAACCAGATTCACCATTACGACCTCAATCCTCCCCATC
AAATCTTCTAAGATACCAGGTTCGTCGTTGCGGCCTCAACCTTTCCCATCAAATTTCATGGTACC
G
Found at i:46671109 original size:31 final size:30
Alignment explanation
Indices: 46671065--46671410 Score: 283
Period size: 29 Copynumber: 11.6 Consensus size: 30
46671055 GAGAATACAT
* *
46671065 GGTCAAAACGTAATTTTAGAAAAGTTTGGAG
1 GGTCAAAATGTAATTTTGGAAAAGTTT-GAG
*
46671096 GGTAAAAATGTAATTTTGGAAAAGTTTG-G
1 GGTCAAAATGTAATTTTGGAAAAGTTTGAG
* *
46671125 GGTCAAAATGTGATTTTGGAAAAGTTT-AA
1 GGTCAAAATGTAATTTTGGAAAAGTTTGAG
* * *
46671154 GGTTAAAATGTGATTTTGGAGAAGTTTG-G
1 GGTCAAAATGTAATTTTGGAAAAGTTTGAG
* * * *
46671183 GATCAAAATGTGATTTT-GAGAAGGTTTGGGG
1 GGTCAAAATGTAATTTTGGA-AAAGTTT-GAG
* * *
46671214 GGTCAAAATGTGATTTTAGAGAAGTTT-AGG
1 GGTCAAAATGTAATTTTGGAAAAGTTTGA-G
* ** * *
46671244 GGTTAAAATACAATTTT-AAAAACTTTGAG
1 GGTCAAAATGTAATTTTGGAAAAGTTTGAG
* * * * * * *
46671273 GTTTAGAATATAATTTTAGAATAGTTTGTG
1 GGTCAAAATGTAATTTTGGAAAAGTTTGAG
46671303 GGTCAAAATGTAATTTTGGAAAAGTTTGGAG
1 GGTCAAAATGTAATTTTGGAAAAGTTT-GAG
*
46671334 GGTCAAAATGTAATTTTGGGAAAGTTTGGAG
1 GGTCAAAATGTAATTTTGGAAAAGTTT-GAG
* * * *
46671365 GGTCAAAATATGATTTTGGGAACGTTT-AG
1 GGTCAAAATGTAATTTTGGAAAAGTTTGAG
* *
46671394 GGTTAAAATGTGATTTT
1 GGTCAAAATGTAATTTT
46671411 TAAAGAAAAT
Statistics
Matches: 261, Mismatches: 44, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
28 2 0.01
29 109 0.42
30 46 0.18
31 102 0.39
32 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.35
Consensus pattern (30 bp):
GGTCAAAATGTAATTTTGGAAAAGTTTGAG
Found at i:46671147 original size:60 final size:59
Alignment explanation
Indices: 46671065--46671410 Score: 304
Period size: 60 Copynumber: 5.8 Consensus size: 59
46671055 GAGAATACAT
* * *
46671065 GGTCAAAACGTAATTTTAGAAAAGTTTGGAGGGTAAAAATGTAATTTTGGAAAAGTTTGG
1 GGTCAAAATGTAATTTTGGAAAAGTTT-GAGGGTTAAAATGTAATTTTGGAAAAGTTTGG
* * * *
46671125 GGTCAAAATGTGATTTTGGAAAAGTTT-AAGGTTAAAATGTGATTTTGGAGAAGTTTGG
1 GGTCAAAATGTAATTTTGGAAAAGTTTGAGGGTTAAAATGTAATTTTGGAAAAGTTTGG
* * * * * * * *
46671183 GATCAAAATGTGATTTT-GAGAAGGTTTGGGGGGTCAAAATGTGATTTTAGAGAAGTTTAGG
1 GGTCAAAATGTAATTTTGGA-AAAGTTT-GAGGGTTAAAATGTAATTTTGGAAAAGTTT-GG
* ** * * * * * * *
46671244 GGTTAAAATACAATTTT-AAAAACTTTGAGGTTTAGAATATAATTTTAGAATAGTTTGTG
1 GGTCAAAATGTAATTTTGGAAAAGTTTGAGGGTTAAAATGTAATTTTGGAAAAGTTTG-G
* *
46671303 GGTCAAAATGTAATTTTGGAAAAGTTTGGAGGGTCAAAATGTAATTTTGGGAAAGTTTGGAG
1 GGTCAAAATGTAATTTTGGAAAAGTTT-GAGGGTTAAAATGTAATTTTGGAAAAGTTT-G-G
* * * * *
46671365 GGTCAAAATATGATTTTGGGAACGTTT-AGGGTTAAAATGTGATTTT
1 GGTCAAAATGTAATTTTGGAAAAGTTTGAGGGTTAAAATGTAATTTT
46671411 TAAAGAAAAT
Statistics
Matches: 230, Mismatches: 48, Indels: 16
0.78 0.16 0.05
Matches are distributed among these distances:
57 2 0.01
58 50 0.22
59 37 0.16
60 78 0.34
61 38 0.17
62 25 0.11
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.35
Consensus pattern (59 bp):
GGTCAAAATGTAATTTTGGAAAAGTTTGAGGGTTAAAATGTAATTTTGGAAAAGTTTGG
Found at i:46673709 original size:19 final size:17
Alignment explanation
Indices: 46673685--46673733 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 17
46673675 TAAATTCACA
46673685 TTTAAAATAATTATAATAT
1 TTTAAAATAATTAT--TAT
46673704 TTTAAATTATAATTATTAT
1 TTTAAA--ATAATTATTAT
46673723 TTTAAAA-AATT
1 TTTAAAATAATT
46673734 GAAATAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 4 0.14
17 1 0.04
19 15 0.54
21 8 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTAAAATAATTATTAT
Found at i:46682978 original size:21 final size:21
Alignment explanation
Indices: 46682941--46682984 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
46682931 TAGAAAATAA
46682941 TTTTTGAAAAATAGA-TTTAT
1 TTTTTGAAAAATAGATTTTAT
*
46682961 TTTTTGAAAAATTTGATTTTAT
1 TTTTTGAAAAA-TAGATTTTAT
46682983 TT
1 TT
46682985 GGTGTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
21 3 0.14
22 7 0.33
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (21 bp):
TTTTTGAAAAATAGATTTTAT
Found at i:46685753 original size:15 final size:15
Alignment explanation
Indices: 46685731--46685776 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
46685721 AATTAAATAT
46685731 ATTTTTTCAACTAAGA
1 ATTTTTTCAA-TAAGA
46685747 A-TTTTTC-ATAAAGA
1 ATTTTTTCAAT-AAGA
46685761 ATTTTTTCAATTAAGA
1 ATTTTTTCAA-TAAGA
46685777 TACAAAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
13 1 0.04
14 6 0.23
15 12 0.46
16 6 0.23
17 1 0.04
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.46
Consensus pattern (15 bp):
ATTTTTTCAATAAGA
Found at i:46689995 original size:38 final size:38
Alignment explanation
Indices: 46689951--46690027 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
46689941 TATAATGATG
46689951 TCTCAAAATTTGATTCACAAATAATGTGTAGAATTATA
1 TCTCAAAATTTGATTCACAAATAATGTGTAGAATTATA
46689989 TCTCAAAATTTGATTCACAAATAATGTGTAGAATTATA
1 TCTCAAAATTTGATTCACAAATAATGTGTAGAATTATA
46690027 T
1 T
46690028 ACCGCCAATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (38 bp):
TCTCAAAATTTGATTCACAAATAATGTGTAGAATTATA
Found at i:46695817 original size:23 final size:24
Alignment explanation
Indices: 46695786--46695836 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
46695776 TTTAACGTGT
*
46695786 TTGATTTAATAACT-A-TTATGTTG
1 TTGAGTTAATAACTCACTT-TGTTG
*
46695809 TTGAGTTAATCACTCACTTTGTTG
1 TTGAGTTAATAACTCACTTTGTTG
46695833 TTGA
1 TTGA
46695837 CTTGATTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 12 0.50
24 10 0.42
25 2 0.08
ACGTcount: A:0.25, C:0.10, G:0.16, T:0.49
Consensus pattern (24 bp):
TTGAGTTAATAACTCACTTTGTTG
Found at i:46703157 original size:640 final size:639
Alignment explanation
Indices: 46701937--46703857 Score: 3225
Period size: 640 Copynumber: 3.0 Consensus size: 639
46701927 CATGGGTGTG
* * * * *
46701937 TAGGCCTAAACACTAAAATTTTCCTTAGGGTCGTAAGCGTCTTGCGAGGCGAACATAGGCCTTTC
1 TAGGCCTAAACACTAAAATTTTCCTTA-GGCCGTAAGCGTCGTGCGAGGCGAACGTAAGCCTTCC
46702002 GTAAGGTTCGTATGAACTGAATTAGACTGTATAAACTGCTATACCGTGATCTGAATTGAGTACTG
65 GTAAGGTTCGTATGAACTGAATTAGACTGTATAAACTGCTATACCGTGATCTGAATTGAGTACTG
*
46702067 AGCATCTGTATGCGATAAAAATTATTGCTATTGATATATTCTATTGAGCATAAACTATAAAAGAA
130 AGCATCTGTATGCGATAAAAATTATTGTTATTGATATATTCTATTGAGCATAAACTATAAAAGAA
* *
46702132 TAACTGTATGTGCAATCTTATTATTTTTCGTCTGAAATTTGCATCAGCATTGGGTAGGAATTGTA
195 TAACTGTATGTGCAATCTTATTATTTGTCGTCTGAAATTTGCATCAGCATTGGGTGGGAATTGTA
*
46702197 TAAGTAGGAAGTGTATTATTTTGAATTAGTGGCTAAGCCACCAATATCTGTAATATGATTTGGCA
260 TAAGTAGGAAGTGTATTATTCTGAATTAGTGGCTAAGCCACCAATATCTGTAATATGATTTGGCA
*
46702262 GCTAGATTGCAAATACTGAAACATATCATATCGACACTATGTGGTGTGTAGGGTTGGATGGGTAT
325 GCTAGATTGCAAATACTGAAACATGTCATATCGACACTATGTGGTGTGTAGGGTTGGATGGGTAT
* ** * *
46702327 TATATA-TTCTATATGGTGTGTTGGGTTTCACAGAGACAGTGTATAGCGAATGAGGGTAGAAAAA
390 TATATACCT-TATATGGTGTGTTGGGTTGGACAGAGACAGTGTGTAGCGAATGAGGGTAGGAAAA
*
46702391 TTGCATCTGTATCTTATTTGTTTAGTTTTTGAGAATGAAATACTTTGTTATTTGTTTAACCTGTT
454 TTGCATCTGTATCTTATTTGTTTGGTTTTTGAGAATGAAATACTTTGTTATTTGTTTAACCTGTT
46702456 ACGATCTATTAACTCAGACGGAATGTCTCTAAGTCTGATTCTATAA-ATGAATCTGGTAAATTTT
519 ACGATCTATTAACTCAGACGGAATGTCTCTAAGTCTGATTCTA-AATATGAATCTGGTAAATTTT
*
46702520 TTGGATTACTATTTAACGTGTTTGATTTAAAAATTGTTATGTTGTTGAGTTAACCAT
583 TTGGATTACTATTTAACGTGTTTGATTTAAAAATTGTTATGTTGTTGAGTTAACCAC
46702577 TAGGCCTAAACACTAAAATTTTCCTTAGGACCGTAAGCGTCGTGCGAGGCGAACGTAAGCCTTCC
1 TAGGCCTAAACACTAAAATTTTCCTTAGG-CCGTAAGCGTCGTGCGAGGCGAACGTAAGCCTTCC
* * * * * *
46702642 TTAAGGTTCTTATGAACTGAATTAGACTGTATAAACTGCTATATCGTGATATGAATTTAGTACTA
65 GTAAGGTTCGTATGAACTGAATTAGACTGTATAAACTGCTATACCGTGATCTGAATTGAGTACTG
46702707 AGCATCTGTATGCGATAAAAATTATTGTTATTGATATATTCTATTGAGCATAAACTATAAAAGAA
130 AGCATCTGTATGCGATAAAAATTATTGTTATTGATATATTCTATTGAGCATAAACTATAAAAGAA
* *
46702772 TAATTGTATATGCAATCTTATTATTTGTCGTCTGAAATTTGCATCAGCATTGGGTGGGAATTGTA
195 TAACTGTATGTGCAATCTTATTATTTGTCGTCTGAAATTTGCATCAGCATTGGGTGGGAATTGTA
**
46702837 TAAGTAGGAAGTGTATTATTCTGAATTAGTGGCTAAGCCACCAATATCTGTAATATGATTTGATA
260 TAAGTAGGAAGTGTATTATTCTGAATTAGTGGCTAAGCCACCAATATCTGTAATATGATTTGGCA
* *
46702902 GCTAGATTGCAAATACTGAAACATGTCATATCGACATTATGTGATGTGTAGGGTTGGATGGGTAT
325 GCTAGATTGCAAATACTGAAACATGTCATATCGACACTATGTGGTGTGTAGGGTTGGATGGGTAT
* * * * *
46702967 TGTATACCTTATATGGTGTGTTGAGTTGGACGGAGACAATGTGTAGCGAATGAGAGTAGGAAAAT
390 TATATACCTTATATGGTGTGTTGGGTTGGACAGAGACAGTGTGTAGCGAATGAGGGTAGGAAAAT
* *
46703032 TGCATCTGTATCTTATTTGTTTGGTTTCTGAGAATGAAATACTTTGTTATTTGTTTAACTTGTTA
455 TGCATCTGTATCTTATTTGTTTGGTTTTTGAGAATGAAATACTTTGTTATTTGTTTAACCTGTTA
* * * *
46703097 CAATCTATTAACTCAGACGAAATGTCTCTAAGTCTGATTCTAGATATGAATTTGGTAAATTTTTT
520 CGATCTATTAACTCAGACGGAATGTCTCTAAGTCTGATTCTAAATATGAATCTGGTAAATTTTTT
* * *
46703162 GGATTACTATTTAACGTGTTTGATTTAAAATTTGTTATGTTGTTAAGTTAATCAC
585 GGATTACTATTTAACGTGTTTGATTTAAAAATTGTTATGTTGTTGAGTTAACCAC
* *
46703217 TAGGCCTAAACACTAAAATTTTCCTTAAGGCCGTAAGTGTCGTGCGAGGCAAACGTAAGCCTTCC
1 TAGGCCTAAACACTAAAATTTTCCTT-AGGCCGTAAGCGTCGTGCGAGGCGAACGTAAGCCTTCC
* *
46703282 GTAAGGTTCGTATGAACTGAATTAAACTGTATAAACTGCTATACCGTGATCTGAATTGATTACTG
65 GTAAGGTTCGTATGAACTGAATTAGACTGTATAAACTGCTATACCGTGATCTGAATTGAGTACTG
* * *
46703347 AGCATCTATATGCTATAAAAATTATTGTTGTTGATATATTCTATTGAGCATAAACTATAAAAGAA
130 AGCATCTGTATGCGATAAAAATTATTGTTATTGATATATTCTATTGAGCATAAACTATAAAAGAA
46703412 TAACTGTATGTGCAATCTTATTATTTGTCGTCTGAAATTTGCATCAGCATTGGGTGGGAATTGTA
195 TAACTGTATGTGCAATCTTATTATTTGTCGTCTGAAATTTGCATCAGCATTGGGTGGGAATTGTA
* * *
46703477 TAAGTAGGAAGTGTATTATTCTGAATTAGTGGCTAAGCCACTAATATCCGTAATATGATTCGGCA
260 TAAGTAGGAAGTGTATTATTCTGAATTAGTGGCTAAGCCACCAATATCTGTAATATGATTTGGCA
* * *
46703542 GCTAGATTACAAATACTGAAACATGTCATATCGATACTATGTGGTGTGTAGGGTTGGATGGATAT
325 GCTAGATTGCAAATACTGAAACATGTCATATCGACACTATGTGGTGTGTAGGGTTGGATGGGTAT
*
46703607 TATATACCTTATATGGTGTGTTGGGTTGGACAGAGACGGTGTGTAGCGAATGAGGGTAGGAAAAT
390 TATATACCTTATATGGTGTGTTGGGTTGGACAGAGACAGTGTGTAGCGAATGAGGGTAGGAAAAT
* *
46703672 TGCATTTGTATCTTATTTGTTTGGTTTTTGAGAATGAAATATTTTGTTATTTGTTTAACCTGTTA
455 TGCATCTGTATCTTATTTGTTTGGTTTTTGAGAATGAAATACTTTGTTATTTGTTTAACCTGTTA
*
46703737 CGATCTATTAACTCAGATGGAATGTCTCTAAGTCTGATTCTAAATATGAATCTGGTAAATTTTTT
520 CGATCTATTAACTCAGACGGAATGTCTCTAAGTCTGATTCTAAATATGAATCTGGTAAATTTTTT
* *
46703802 GGATTACTATTTAATGTGTTTGATTTAAAAATTGTTATGTTGTTGAGTTAATCAC
585 GGATTACTATTTAACGTGTTTGATTTAAAAATTGTTATGTTGTTGAGTTAACCAC
46703857 T
1 T
46703858 CACTTTGTTG
Statistics
Matches: 1191, Mismatches: 86, Indels: 8
0.93 0.07 0.01
Matches are distributed among these distances:
639 3 0.00
640 1184 0.99
641 4 0.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (639 bp):
TAGGCCTAAACACTAAAATTTTCCTTAGGCCGTAAGCGTCGTGCGAGGCGAACGTAAGCCTTCCG
TAAGGTTCGTATGAACTGAATTAGACTGTATAAACTGCTATACCGTGATCTGAATTGAGTACTGA
GCATCTGTATGCGATAAAAATTATTGTTATTGATATATTCTATTGAGCATAAACTATAAAAGAAT
AACTGTATGTGCAATCTTATTATTTGTCGTCTGAAATTTGCATCAGCATTGGGTGGGAATTGTAT
AAGTAGGAAGTGTATTATTCTGAATTAGTGGCTAAGCCACCAATATCTGTAATATGATTTGGCAG
CTAGATTGCAAATACTGAAACATGTCATATCGACACTATGTGGTGTGTAGGGTTGGATGGGTATT
ATATACCTTATATGGTGTGTTGGGTTGGACAGAGACAGTGTGTAGCGAATGAGGGTAGGAAAATT
GCATCTGTATCTTATTTGTTTGGTTTTTGAGAATGAAATACTTTGTTATTTGTTTAACCTGTTAC
GATCTATTAACTCAGACGGAATGTCTCTAAGTCTGATTCTAAATATGAATCTGGTAAATTTTTTG
GATTACTATTTAACGTGTTTGATTTAAAAATTGTTATGTTGTTGAGTTAACCAC
Found at i:46706119 original size:21 final size:21
Alignment explanation
Indices: 46706089--46706130 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
46706079 CAAACAATGA
46706089 CAAAAAGTATCGATACCTTTT
1 CAAAAAGTATCGATACCTTTT
*
46706110 CAAAATGTATCGATACCTTTT
1 CAAAAAGTATCGATACCTTTT
46706131 ATCAGGTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (21 bp):
CAAAAAGTATCGATACCTTTT
Found at i:46720689 original size:10 final size:10
Alignment explanation
Indices: 46720664--46720693 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
46720654 GTTTATTAAG
46720664 GTAAATAAAC
1 GTAAATAAAC
46720674 -TAAATAAAC
1 GTAAATAAAC
46720683 GTAAATAAAC
1 GTAAATAAAC
46720693 G
1 G
46720694 AGTATGAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (10 bp):
GTAAATAAAC
Found at i:46726821 original size:14 final size:14
Alignment explanation
Indices: 46726793--46726833 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
46726783 AATTCTAATA
*
46726793 ATTAATTTTAT-TT
1 ATTAATTTTTTATT
46726806 ATTAATTTTTTATT
1 ATTAATTTTTTATT
*
46726820 ATTAATTATTTATT
1 ATTAATTTTTTATT
46726834 GATATTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTAATTTTTTATT
Found at i:46726963 original size:31 final size:31
Alignment explanation
Indices: 46726908--46726987 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
46726898 ATTGTAATTG
* *
46726908 AAATTTAAATTTAAAA-AAAAAATTATATAA
1 AAATTTAATTTTAAAATTAAAAATTATATAA
*
46726938 AAATTTAATTTTAAAATTAAAAATTATTTAA
1 AAATTTAATTTTAAAATTAAAAATTATATAA
*
46726969 AACTTT-ATTTCTAAAATTA
1 AAATTTAATTT-TAAAATTA
46726988 TATAAAATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
30 19 0.43
31 25 0.57
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (31 bp):
AAATTTAATTTTAAAATTAAAAATTATATAA
Found at i:46733058 original size:25 final size:27
Alignment explanation
Indices: 46733026--46733083 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 27
46733016 AATATTTAAA
*
46733026 TTAT-TATTTTAATTT-TTAATAA-TT
1 TTATATATTTTAATTTATTAAAAATTT
*
46733050 TTATATATTTTTATTTATTAAAAATTT
1 TTATATATTTTAATTTATTAAAAATTT
46733077 TTATATA
1 TTATATA
46733084 GTCATCTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 4 0.14
25 10 0.34
26 6 0.21
27 9 0.31
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (27 bp):
TTATATATTTTAATTTATTAAAAATTT
Found at i:46738774 original size:28 final size:28
Alignment explanation
Indices: 46738658--46738775 Score: 82
Period size: 28 Copynumber: 4.1 Consensus size: 28
46738648 AAAATGAGAC
* * *
46738658 TTTTGGATACCCGGGGGTAAAATGGTAA
1 TTTTGGACATCCGAGGGTAAAATGGTAA
* *
46738686 TTTTGAAC-TCTCGAGGGCAAAATGGTAA
1 TTTTGGACATC-CGAGGGTAAAATGGTAA
* **
46738714 TTTTGGGAAAGTTTG-GGGTTAAAAAT-G-ACA
1 TTTT-GGACA-TCCGAGGG-T-AAAATGGTA-A
46738744 TTTTGGACATCCGAGGGTAAAATGGTAA
1 TTTTGGACATCCGAGGGTAAAATGGTAA
46738772 TTTT
1 TTTT
46738776 TAGAAAAATC
Statistics
Matches: 67, Mismatches: 13, Indels: 20
0.67 0.13 0.20
Matches are distributed among these distances:
27 6 0.09
28 34 0.51
29 14 0.21
30 7 0.10
31 6 0.09
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
TTTTGGACATCCGAGGGTAAAATGGTAA
Found at i:46738796 original size:58 final size:57
Alignment explanation
Indices: 46738734--46738864 Score: 158
Period size: 59 Copynumber: 2.2 Consensus size: 57
46738724 GTTTGGGGTT
46738734 AAAAATGACA-TTTTGGACATCCGAGGGTAAAATGGTAATTTTTAGAAA-AATCAAGATC
1 AAAAATGA-ATTTTTGGACATCCGAGGGTAAAATGGTAATTTTT-GAAAGAATCAA-ATC
* * * **
46738792 AAAAACAGAATTTTTGGACATCTGGGGGTAAAATGGTAATTTTTGAAAGTTTCAAATC
1 AAAAA-TGAATTTTTGGACATCCGAGGGTAAAATGGTAATTTTTGAAAGAATCAAATC
46738850 AAAAATGTAATTTTT
1 AAAAATG-AATTTTT
46738865 AGAAGTTCAG
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
57 1 0.02
58 25 0.40
59 37 0.59
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.32
Consensus pattern (57 bp):
AAAAATGAATTTTTGGACATCCGAGGGTAAAATGGTAATTTTTGAAAGAATCAAATC
Found at i:46738884 original size:59 final size:58
Alignment explanation
Indices: 46738821--46738962 Score: 146
Period size: 59 Copynumber: 2.4 Consensus size: 58
46738811 ATCTGGGGGT
*
46738821 AAAATGGTAATTTTTGAAAGTTTCAAATCAAAAATGTA-ATTTTTAGAAGTTC-AGGACTA
1 AAAAT-GTAATTTTTGAAAGTTTCAAATC-AAAATCTAGATTTTTAGAAGTTCGAGG-CTA
* * ** * *
46738880 AAAATGTAA-TTTTCAATAATTTCGAGGTCAAAATCTAGATTTTTGGAAGTTCGAGGGTA
1 AAAATGTAATTTTTGAA-AGTTTC-AAATCAAAATCTAGATTTTTAGAAGTTCGAGGCTA
*
46738939 AAAATGTAATTTTTGAAGGTTTCA
1 AAAATGTAATTTTTGAAAGTTTCA
46738963 TGGTTAAAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
57 6 0.09
58 17 0.25
59 36 0.53
60 9 0.13
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.37
Consensus pattern (58 bp):
AAAATGTAATTTTTGAAAGTTTCAAATCAAAATCTAGATTTTTAGAAGTTCGAGGCTA
Found at i:46738943 original size:30 final size:29
Alignment explanation
Indices: 46738850--46739076 Score: 155
Period size: 29 Copynumber: 7.8 Consensus size: 29
46738840 GTTTCAAATC
* *
46738850 AAAAATGTAATTTTTAGAAGTTC-AGGACT
1 AAAAATGTAATTTTTGGAAGTTCGAGG-GT
*** *
46738879 AAAAATGTAATTTTCAATAATTTCGA-GGT
1 AAAAATGTAATTTT-TGGAAGTTCGAGGGT
* *
46738908 CAAAATCTAGATTTTTGGAAGTTCGAGGGT
1 AAAAATGTA-ATTTTTGGAAGTTCGAGGGT
*
46738938 AAAAATGTAATTTTT-GAAGGTTTC-ATGGTT
1 AAAAATGTAATTTTTGGAA-G-TTCGA-GGGT
* * *
46738968 AAAAATGGAATTTTTGGAAATTTGAGGGT
1 AAAAATGTAATTTTTGGAAGTTCGAGGGT
* *
46738997 AAAAATG-AAATTTTGGAAAGTT-TAGGGGT
1 AAAAATGTAATTTTTGG-AAGTTCGA-GGGT
*
46739026 -AAAATGTAATTTTTGGAAATTTCGA-GGT
1 AAAAATGTAATTTTTGG-AAGTTCGAGGGT
* *
46739054 TAAAATATAATTTTTGGATAGTT
1 AAAAATGTAATTTTTGGA-AGTT
46739077 TAGGGACCTC
Statistics
Matches: 158, Mismatches: 25, Indels: 30
0.74 0.12 0.14
Matches are distributed among these distances:
28 22 0.14
29 88 0.56
30 44 0.28
31 4 0.03
ACGTcount: A:0.37, C:0.04, G:0.21, T:0.37
Consensus pattern (29 bp):
AAAAATGTAATTTTTGGAAGTTCGAGGGT
Found at i:46738971 original size:29 final size:28
Alignment explanation
Indices: 46738820--46739069 Score: 132
Period size: 29 Copynumber: 8.6 Consensus size: 28
46738810 CATCTGGGGG
**
46738820 TAAAATGGTAATTTTTGAAAGTTTCA-AAT
1 TAAAAT-GTAATTTTTGAAA-TTTCAGGGT
* * *
46738849 CAAAAATGTAATTTTT-AGAAGTTCAGGACT
1 -TAAAATGTAATTTTTGA-AATTTCAGG-GT
* **
46738879 AAAAATGTAATTTTCAATAATTTC-GAGGT
1 TAAAATGTAATTTTTGA-AATTTCAG-GGT
* * * *
46738908 CAAAATCTAGATTTTTGGAAGTTCGAGGGT
1 TAAAATGTA-ATTTTTGAAATTTC-AGGGT
* * *
46738938 AAAAATGTAATTTTTGAAGGTTTCATGGT
1 TAAAATGTAATTTTTGAA-ATTTCAGGGT
* *
46738967 TAAAAATGGAATTTTTGGAAATTTGAGGGT
1 T-AAAATGTAATTTTT-GAAATTTCAGGGT
* * * *
46738997 AAAAATGAAATTTTGGAAAGTTT-AGGGG
1 TAAAATGTAATTTTTGAAA-TTTCAGGGT
46739025 TAAAATGTAATTTTTGGAAATTTC-GAGGT
1 TAAAATGTAATTTTT-GAAATTTCAG-GGT
*
46739054 TAAAATATAATTTTTG
1 TAAAATGTAATTTTTG
46739070 GATAGTTTAG
Statistics
Matches: 171, Mismatches: 34, Indels: 32
0.72 0.14 0.14
Matches are distributed among these distances:
28 30 0.18
29 86 0.50
30 51 0.30
31 4 0.02
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (28 bp):
TAAAATGTAATTTTTGAAATTTCAGGGT
Found at i:46738981 original size:59 final size:57
Alignment explanation
Indices: 46738918--46739081 Score: 186
Period size: 59 Copynumber: 2.8 Consensus size: 57
46738908 CAAAATCTAG
* * * *
46738918 ATTTTTGGAAGTTCGAGGGTAAAAATGTAATTTTTGAAGGTTTCATGGTTAAAAATGGA
1 ATTTTTGGAAATTCGAGGGTAAAAATGTAATTTTTGAAAGTTT-AGGGGT-AAAATGGA
* * * *
46738977 ATTTTTGGAAATTTGAGGGTAAAAATGAAATTTTGGAAAGTTTAGGGGTAAAATGTA
1 ATTTTTGGAAATTCGAGGGTAAAAATGTAATTTTTGAAAGTTTAGGGGTAAAATGGA
* * *
46739034 ATTTTTGGAAATTTCGA-GGTTAAAATATAATTTTTGGATAGTTTAGGG
1 ATTTTTGGAAA-TTCGAGGGTAAAAATGTAATTTTT-GAAAGTTTAGGG
46739082 ACCTCCAGGG
Statistics
Matches: 89, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
57 32 0.36
58 19 0.21
59 38 0.43
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.38
Consensus pattern (57 bp):
ATTTTTGGAAATTCGAGGGTAAAAATGTAATTTTTGAAAGTTTAGGGGTAAAATGGA
Found at i:46741035 original size:17 final size:17
Alignment explanation
Indices: 46741010--46741084 Score: 71
Period size: 17 Copynumber: 4.4 Consensus size: 17
46741000 TGGACTTTTG
*
46741010 ATTTTAATTTAAAATAA
1 ATTTAAATTTAAAATAA
*
46741027 ATTTAAATTTAAAGTAA
1 ATTTAAATTTAAAATAA
* ** *
46741044 A-TTCAATCTCCAAATGA
1 ATTTAAAT-TTAAAATAA
*
46741061 ATTTGAATTTAAAATAA
1 ATTTAAATTTAAAATAA
46741078 ATTTAAA
1 ATTTAAA
46741085 CTTATTTAAA
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
16 5 0.11
17 34 0.77
18 5 0.11
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:46742892 original size:26 final size:24
Alignment explanation
Indices: 46742842--46742900 Score: 57
Period size: 26 Copynumber: 2.3 Consensus size: 24
46742832 TTAAGATGAC
46742842 TATATAAAAATTTAATAAATAAAAAA
1 TATAT-AAAATTTAATAAAT-AAAAA
*
46742868 TATATAAAA-TTATTAAATATTAAAA
1 TATATAAAATTTAATAAATA--AAAA
46742893 TAATATAA
1 T-ATATAA
46742901 TATAATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 1 0.03
24 8 0.28
25 9 0.31
26 11 0.38
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
TATATAAAATTTAATAAATAAAAA
Found at i:46749038 original size:21 final size:21
Alignment explanation
Indices: 46749013--46749054 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
46749003 CATATCAAAA
46749013 AACAAACAACAAAAACTAACT
1 AACAAACAACAAAAACTAACT
*
46749034 AACAAACTACAAAAACTAACT
1 AACAAACAACAAAAACTAACT
46749055 CTAATAACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.64, C:0.24, G:0.00, T:0.12
Consensus pattern (21 bp):
AACAAACAACAAAAACTAACT
Found at i:46770921 original size:189 final size:189
Alignment explanation
Indices: 46770601--46770980 Score: 760
Period size: 189 Copynumber: 2.0 Consensus size: 189
46770591 ATAAATCTAT
46770601 TAACGGATTCATGATCTATTCTGCTTGAGTCCAATTCGATGTATTGTCAATCCAATCAGTCATAT
1 TAACGGATTCATGATCTATTCTGCTTGAGTCCAATTCGATGTATTGTCAATCCAATCAGTCATAT
46770666 ATATGTCTCTATCTTTTGGAAGTCATCTACTCTAATGCCCAAGACAAAACATCTCCCTAATTGGA
66 ATATGTCTCTATCTTTTGGAAGTCATCTACTCTAATGCCCAAGACAAAACATCTCCCTAATTGGA
46770731 CTTGATAGACGACATATTAATCTTTCAATCGGTTTGCTCATTTCTAATTAGACTAAGGA
131 CTTGATAGACGACATATTAATCTTTCAATCGGTTTGCTCATTTCTAATTAGACTAAGGA
46770790 TAACGGATTCATGATCTATTCTGCTTGAGTCCAATTCGATGTATTGTCAATCCAATCAGTCATAT
1 TAACGGATTCATGATCTATTCTGCTTGAGTCCAATTCGATGTATTGTCAATCCAATCAGTCATAT
46770855 ATATGTCTCTATCTTTTGGAAGTCATCTACTCTAATGCCCAAGACAAAACATCTCCCTAATTGGA
66 ATATGTCTCTATCTTTTGGAAGTCATCTACTCTAATGCCCAAGACAAAACATCTCCCTAATTGGA
46770920 CTTGATAGACGACATATTAATCTTTCAATCGGTTTGCTCATTTCTAATTAGACTAAGGA
131 CTTGATAGACGACATATTAATCTTTCAATCGGTTTGCTCATTTCTAATTAGACTAAGGA
46770979 TA
1 TA
46770981 TGTTTAAATT
Statistics
Matches: 191, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
189 191 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.36
Consensus pattern (189 bp):
TAACGGATTCATGATCTATTCTGCTTGAGTCCAATTCGATGTATTGTCAATCCAATCAGTCATAT
ATATGTCTCTATCTTTTGGAAGTCATCTACTCTAATGCCCAAGACAAAACATCTCCCTAATTGGA
CTTGATAGACGACATATTAATCTTTCAATCGGTTTGCTCATTTCTAATTAGACTAAGGA
Found at i:46779514 original size:32 final size:32
Alignment explanation
Indices: 46779478--46779538 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
46779468 GAGCTTTATT
* *
46779478 AAGCT-CAGATTTTCTTGAGCTCGGGCTTTTCC
1 AAGCTCCA-ATTTTCTAGAGCTCGAGCTTTTCC
46779510 AAGCTCCAATTTTCTAGAGCTCGAGCTTT
1 AAGCTCCAATTTTCTAGAGCTCGAGCTTT
46779539 CTCAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 24 0.92
33 2 0.08
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.36
Consensus pattern (32 bp):
AAGCTCCAATTTTCTAGAGCTCGAGCTTTTCC
Found at i:46780643 original size:25 final size:25
Alignment explanation
Indices: 46780598--46780671 Score: 62
Period size: 25 Copynumber: 2.9 Consensus size: 25
46780588 AGCTCACATC
*
46780598 TATTTATTTATTTTATCTTATATGTA
1 TATTT-TTTATTTTATATTATATGTA
* *
46780624 TATTTTTTATTGTT-TATTATGTTTA
1 TATTTTTTATT-TTATATTATATGTA
*
46780649 TATTATTT-TTTTATTATCTATAT
1 TATTTTTTATTTTA-TAT-TATAT
46780672 TTGTAAATCA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
23 2 0.05
24 2 0.05
25 24 0.62
26 11 0.28
ACGTcount: A:0.24, C:0.03, G:0.04, T:0.69
Consensus pattern (25 bp):
TATTTTTTATTTTATATTATATGTA
Found at i:46792013 original size:50 final size:50
Alignment explanation
Indices: 46791873--46792021 Score: 147
Period size: 50 Copynumber: 3.0 Consensus size: 50
46791863 GACAAATCCT
* ** * ** * *
46791873 ATACCCCTAAAGCTGTAGAGGAACGGATT-AAAGTCGTAATGACAAATCTC
1 ATACACCTAAAGCTGTAGAGGGGCAGATTGAAA-TCACAAAGACGAATCTC
* ** *
46791923 ATACACCTAAAGCTGTAGAGGGGCAGATTGAAGTTGCAAAGGCGAATCTC
1 ATACACCTAAAGCTGTAGAGGGGCAGATTGAAATCACAAAGACGAATCTC
* * *
46791973 ATTCACCTAAAGTTGTAGAGGGGTAGATTGAAATCACAAAGACGAATCT
1 ATACACCTAAAGCTGTAGAGGGGCAGATTGAAATCACAAAGACGAATCT
46792022 TATAATCCTG
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
50 79 0.98
51 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.22
Consensus pattern (50 bp):
ATACACCTAAAGCTGTAGAGGGGCAGATTGAAATCACAAAGACGAATCTC
Found at i:46792139 original size:79 final size:79
Alignment explanation
Indices: 46792047--46792345 Score: 373
Period size: 79 Copynumber: 3.8 Consensus size: 79
46792037 GAAATGGAGC
* * *
46792047 GAAGACTATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGTAATCCAATCTTTTACCCTAA
1 GAAGACCATCCAATCTCTTACCCCGACCATGGGACAGATTGAAGCAATCCAATCTTTTACCCTAA
* * *
46792112 TCAGAGGGTAGATT
66 CCAGAAGGCAGATT
* * ** *
46792126 GAAGACCATCCAATCTTTTACCCCAACCATGGGGTAGATTGAAGCAATCTAATCTTTTACCCTAA
1 GAAGACCATCCAATCTCTTACCCCGACCATGGGACAGATTGAAGCAATCCAATCTTTTACCCTAA
*
46792191 CCAGATGGCAGATT
66 CCAGAAGGCAGATT
* * *
46792205 GAAGACTATCCGATCTCTTACCCCGACCATGGGACAGATTGAAGCAATTCAATCTTTTACCCTAA
1 GAAGACCATCCAATCTCTTACCCCGACCATGGGACAGATTGAAGCAATCCAATCTTTTACCCTAA
* *
46792270 CCAAAAGACAGATT
66 CCAGAAGGCAGATT
* * * * ** * *
46792284 GAAGACCATTCGATCTCTTACCCCTACCGTAAGATAGATTGAAGTAATCCAATCTTTTACCC
1 GAAGACCATCCAATCTCTTACCCCGACCATGGGACAGATTGAAGCAATCCAATCTTTTACCC
46792346 CTAAAGCTAT
Statistics
Matches: 191, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
79 191 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (79 bp):
GAAGACCATCCAATCTCTTACCCCGACCATGGGACAGATTGAAGCAATCCAATCTTTTACCCTAA
CCAGAAGGCAGATT
Found at i:46792147 original size:40 final size:40
Alignment explanation
Indices: 46792047--46792345 Score: 220
Period size: 39 Copynumber: 7.6 Consensus size: 40
46792037 GAAATGGAGC
* * **
46792047 GAAGACTATCCAATCTCTTACCCCGACCATG-GGGCAGATT
1 GAAGACAATCCAATCTTTTACCCTAACCA-GAGGGCAGATT
* * *
46792087 GAAG-TAATCCAATCTTTTACCCTAATCAGAGGGTAGATT
1 GAAGACAATCCAATCTTTTACCCTAACCAGAGGGCAGATT
* * *
46792126 GAAGACCATCCAATCTTTTACCCCAACCATG-GGGTAGATT
1 GAAGACAATCCAATCTTTTACCCTAACCA-GAGGGCAGATT
* *
46792166 GAAG-CAATCTAATCTTTTACCCTAACCAGATGGCAGATT
1 GAAGACAATCCAATCTTTTACCCTAACCAGAGGGCAGATT
* * * ** *
46792205 GAAGACTATCCGATCTCTTACCCCGACCATG-GGACAGATT
1 GAAGACAATCCAATCTTTTACCCTAACCA-GAGGGCAGATT
* * * *
46792245 GAAG-CAATTCAATCTTTTACCCTAACCAAAAGACAGATT
1 GAAGACAATCCAATCTTTTACCCTAACCAGAGGGCAGATT
* * * * * **
46792284 GAAGACCATTCGATCTCTTACCCCT-ACC-GTAAGATAGATT
1 GAAGACAATCCAATCTTTTA-CCCTAACCAG-AGGGCAGATT
*
46792324 GAAG-TAATCCAATCTTTTACCC
1 GAAGACAATCCAATCTTTTACCC
46792346 CTAAAGCTAT
Statistics
Matches: 207, Mismatches: 42, Indels: 22
0.76 0.15 0.08
Matches are distributed among these distances:
38 5 0.02
39 102 0.49
40 94 0.45
41 6 0.03
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (40 bp):
GAAGACAATCCAATCTTTTACCCTAACCAGAGGGCAGATT
Found at i:46792338 original size:158 final size:158
Alignment explanation
Indices: 46792047--46792345 Score: 427
Period size: 158 Copynumber: 1.9 Consensus size: 158
46792037 GAAATGGAGC
* *
46792047 GAAGACTATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGTAATCCAATCTTTTACCCTAA
1 GAAGACTATCCAATCTCTTACCCCGACCATGGGACAGATTGAAGCAATCCAATCTTTTACCCTAA
* * * ** * ** * *
46792112 TCAGAGGGTAGATTGAAGACCATCCAATCTTTTACCCCAACCATGGGGTAGATTGAAGCAATCTA
66 CCAAAAGACAGATTGAAGACCATCCAATCTCTTACCCCAACCATAAGATAGATTGAAGCAATCCA
46792177 ATCTTTTACCCTAACCAGATGGCAGATT
131 ATCTTTTACCCTAACCAGATGGCAGATT
* *
46792205 GAAGACTATCCGATCTCTTACCCCGACCATGGGACAGATTGAAGCAATTCAATCTTTTACCCTAA
1 GAAGACTATCCAATCTCTTACCCCGACCATGGGACAGATTGAAGCAATCCAATCTTTTACCCTAA
* * * * *
46792270 CCAAAAGACAGATTGAAGACCATTCGATCTCTTACCCCTACCGTAAGATAGATTGAAGTAATCCA
66 CCAAAAGACAGATTGAAGACCATCCAATCTCTTACCCCAACCATAAGATAGATTGAAGCAATCCA
46792335 ATCTTTTACCC
131 ATCTTTTACCC
46792346 CTAAAGCTAT
Statistics
Matches: 122, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
158 122 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (158 bp):
GAAGACTATCCAATCTCTTACCCCGACCATGGGACAGATTGAAGCAATCCAATCTTTTACCCTAA
CCAAAAGACAGATTGAAGACCATCCAATCTCTTACCCCAACCATAAGATAGATTGAAGCAATCCA
ATCTTTTACCCTAACCAGATGGCAGATT
Found at i:46793934 original size:30 final size:30
Alignment explanation
Indices: 46793901--46794076 Score: 165
Period size: 30 Copynumber: 5.9 Consensus size: 30
46793891 ATAAAGCCCT
* * *
46793901 TAAATTTTTCAAAAATTCAAATTTGACTCT
1 TAAATTTTCCAAAAATTCAAATTTGACCCC
* * *
46793931 TAAATTTTCTAAAAAGTCAAATTTAACCCC
1 TAAATTTTCCAAAAATTCAAATTTGACCCC
* ** *
46793961 TAAACTTTT-TAAAAATTTGAATTTAACCCC
1 TAAA-TTTTCCAAAAATTCAAATTTGACCCC
* *
46793991 CAAATTTTCCAAAAATTCCAATTTGACCCC
1 TAAATTTTCCAAAAATTCAAATTTGACCCC
*** *
46794021 TAAATTTTCCAAAAATTTTGATTTGACCCT
1 TAAATTTTCCAAAAATTCAAATTTGACCCC
* **
46794051 TGAAGCTTCCAAAAATTCAAATTTGA
1 TAAATTTTCCAAAAATTCAAATTTGA
46794077 TCCGGTTTTA
Statistics
Matches: 119, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
29 4 0.03
30 111 0.93
31 4 0.03
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (30 bp):
TAAATTTTCCAAAAATTCAAATTTGACCCC
Found at i:46794125 original size:26 final size:29
Alignment explanation
Indices: 46794096--46794167 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 29
46794086 ACTGTTTATT
*
46794096 TATTTATTTATTTTA-TCT-TA-TATGTA
1 TATTTATTTATTTTATTATATATTATGTA
46794122 TATTGT-TTTATTTTATTATATATTATGTA
1 TATT-TATTTATTTTATTATATATTATGTA
46794151 TATTTA-TT-TTTTATTAT
1 TATTTATTTATTTTATTAT
46794168 GTATACTTGT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
26 13 0.32
27 12 0.30
28 5 0.12
29 10 0.25
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.68
Consensus pattern (29 bp):
TATTTATTTATTTTATTATATATTATGTA
Found at i:46794132 original size:21 final size:20
Alignment explanation
Indices: 46794090--46794145 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 20
46794080 GGTTTTACTG
*
46794090 TTTAT-TTATT-TAT-TTAT
1 TTTATCTTATTATATATTGT
*
46794107 TTTATCTTATATGTATATTGT
1 TTTATCTTAT-TATATATTGT
*
46794128 TTTATTTTATTATATATT
1 TTTATCTTATTATATATT
46794146 ATGTATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
17 5 0.16
18 4 0.12
19 1 0.03
20 10 0.31
21 12 0.38
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (20 bp):
TTTATCTTATTATATATTGT
Found at i:46794156 original size:20 final size:20
Alignment explanation
Indices: 46794133--46794172 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
46794123 ATTGTTTTAT
46794133 TTTATTATATATTATGTATA
1 TTTATTATATATTATGTATA
* *
46794153 TTTATTTTTTATTATGTATA
1 TTTATTATATATTATGTATA
46794173 CTTGTAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTATTATATATTATGTATA
Found at i:46794172 original size:29 final size:27
Alignment explanation
Indices: 46794096--46794172 Score: 70
Period size: 29 Copynumber: 2.8 Consensus size: 27
46794086 ACTGTTTATT
*
46794096 TATTTATTTATT-TTATCT-TATATGTA
1 TATTTATTTTTTATTAT-TATATATGTA
*
46794122 TATTGTTTTATTTTATTA-TATATTATGTA
1 TATT-TATT-TTTTATTATTATA-TATGTA
46794151 TATTTATTTTTTATTATGTATA
1 TATTTATTTTTTATTAT-TATA
46794173 CTTGTAAATC
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
26 4 0.10
27 12 0.29
28 8 0.20
29 17 0.41
ACGTcount: A:0.27, C:0.01, G:0.05, T:0.66
Consensus pattern (27 bp):
TATTTATTTTTTATTATTATATATGTA
Found at i:46795125 original size:20 final size:19
Alignment explanation
Indices: 46795096--46795133 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
46795086 AAAATAATTT
46795096 CTAAAATAAAATAAAATAA
1 CTAAAATAAAATAAAATAA
*
46795115 CTAATAATAAAATTAAATA
1 CTAA-AATAAAATAAAATA
46795134 TGTTCAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (19 bp):
CTAAAATAAAATAAAATAA
Found at i:46801068 original size:30 final size:29
Alignment explanation
Indices: 46801032--46801104 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 29
46801022 GTACATGTAC
*
46801032 TATTTTTTAATCAATTTGATCCTTGCACTT
1 TATTTTTTAATCAATTTG-GCCTTGCACTT
* * *
46801062 TATTTTTCTTATCAGTTTGGCCTTGTACTT
1 TATTTTT-TAATCAATTTGGCCTTGCACTT
*
46801092 TAATTTTGTAATC
1 T-ATTTTTTAATC
46801105 CCCGTTAACC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
30 21 0.60
31 14 0.40
ACGTcount: A:0.21, C:0.15, G:0.10, T:0.55
Consensus pattern (29 bp):
TATTTTTTAATCAATTTGGCCTTGCACTT
Found at i:46802707 original size:31 final size:31
Alignment explanation
Indices: 46802669--46802758 Score: 101
Period size: 34 Copynumber: 2.7 Consensus size: 31
46802659 TAAAATATTT
*
46802669 AATATAATTTAATATAAATATTTT-ATTTCAA
1 AATATAATTTAA-ATAAATATTTTAATATCAA
46802700 AATATAATTTAAAATAAAATATTTTAATATCAA
1 AATATAATTT-AAAT-AAATATTTTAATATCAA
*
46802733 AATAATTATATTAAATAATATATTTT
1 AAT-ATAAT-TTAAATAA-ATATTTT
46802759 TTATTTTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
31 12 0.24
32 11 0.22
33 11 0.22
34 15 0.29
35 2 0.04
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (31 bp):
AATATAATTTAAATAAATATTTTAATATCAA
Found at i:46802819 original size:3 final size:3
Alignment explanation
Indices: 46802811--46802852 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
46802801 AATACACTAT
46802811 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
46802853 AATTATACTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:46802995 original size:43 final size:43
Alignment explanation
Indices: 46802934--46803017 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
46802924 CTAAGAGTAT
* * *
46802934 TCTGGTAATTTCAGCTTTTTTCCTTATGCTATTGCAACATTAC
1 TCTGGTAATTTCAACTTTTTTCCTTATACTATTACAACATTAC
*
46802977 TCTGGTAATTTCAACTTTTTTTCTTATACTATTACAACATT
1 TCTGGTAATTTCAACTTTTTTCCTTATACTATTACAACATT
46803018 TATTCCATTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.08, T:0.49
Consensus pattern (43 bp):
TCTGGTAATTTCAACTTTTTTCCTTATACTATTACAACATTAC
Found at i:46806439 original size:97 final size:98
Alignment explanation
Indices: 46806273--46806491 Score: 368
Period size: 97 Copynumber: 2.2 Consensus size: 98
46806263 TTTATGCTTT
46806273 TAATTAGTGTGATCCAAAGTCAAATACAAAAACTAATCTAGTTAGTATCGTACCGATGAACGTAC
1 TAATTAGTGTGATCCAAAGTCAAATACAAAAACTAATCTAGTTAGTATCGTACCGATGAACGTAC
*
46806338 TA-TTTTTCACTGAAATTGGTATATATTAGTAC
66 TATTTTTTCACTGAAATTGGTACATATTAGTAC
* *
46806370 TAATTAGTGTGATCCAAAGTCAAATATAAAAACTAATTTAGTTAGTATCGTACCGATGAACGTAC
1 TAATTAGTGTGATCCAAAGTCAAATACAAAAACTAATCTAGTTAGTATCGTACCGATGAACGTAC
* *
46806435 TATTTTTTCATTGAAATTGGTACATATTGGTAC
66 TATTTTTTCACTGAAATTGGTACATATTAGTAC
**
46806468 TTGTTAGTGTGATCCAAAGTCAAA
1 TAATTAGTGTGATCCAAAGTCAAA
46806492 CCAATGCAAT
Statistics
Matches: 114, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
97 65 0.57
98 49 0.43
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (98 bp):
TAATTAGTGTGATCCAAAGTCAAATACAAAAACTAATCTAGTTAGTATCGTACCGATGAACGTAC
TATTTTTTCACTGAAATTGGTACATATTAGTAC
Found at i:46808582 original size:18 final size:18
Alignment explanation
Indices: 46808556--46808590 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46808546 TCACCAAAAA
46808556 TAAAATATACATTTAAAT
1 TAAAATATACATTTAAAT
* *
46808574 TAAACTATATATTTAAA
1 TAAAATATACATTTAAA
46808591 GATTATATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAAATATACATTTAAAT
Found at i:46811900 original size:66 final size:65
Alignment explanation
Indices: 46811790--46811916 Score: 200
Period size: 66 Copynumber: 1.9 Consensus size: 65
46811780 CCCATTTTTC
* * *
46811790 TATAAACAATATTATAGCTACCCATTATTATTAGGGTCTAATTTGATAAATAGCCCTTAATGTTT
1 TATAAACAAAATTATAGCTACCCATTATTATTAGGGGCTAATTTGACAAATAGCCCTTAATGTTT
* *
46811855 TATAGAACAAAATTATAGCTACCCATTATTATTGGGGGCTAATTTGACAAATAGCCGTTAAT
1 TATA-AACAAAATTATAGCTACCCATTATTATTAGGGGCTAATTTGACAAATAGCCCTTAAT
46811917 TCCTTTTTCT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
65 4 0.07
66 52 0.93
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.36
Consensus pattern (65 bp):
TATAAACAAAATTATAGCTACCCATTATTATTAGGGGCTAATTTGACAAATAGCCCTTAATGTTT
Found at i:46816572 original size:12 final size:13
Alignment explanation
Indices: 46816544--46816578 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
46816534 ACCGGGCTCA
*
46816544 AAAAATAAAATTC
1 AAAAATAAAAATC
46816557 AAAAATAAAAAT-
1 AAAAATAAAAATC
46816569 AAAAATAAAA
1 AAAAATAAAA
46816579 TATTCAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAATAAAAATC
Found at i:46816580 original size:5 final size:6
Alignment explanation
Indices: 46816544--46816578 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
46816534 ACCGGGCTCA
*
46816544 AAAAAT AAAATT CAAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT -AAAAAT AAAAAT AAAAAT AAAA
46816579 TATTCAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:46819487 original size:27 final size:28
Alignment explanation
Indices: 46819457--46819551 Score: 95
Period size: 27 Copynumber: 3.3 Consensus size: 28
46819447 TTTTTTTTAT
46819457 AATTTGGTATCTAAA-TTTTTTTGACCC
1 AATTTGGTATCTAAACTTTTTTTGACCC
* **
46819484 AATTTGGTATCTAAACTTAACATTTTT-TCTT
1 AATTTGGTATCTAAACTT----TTTTTGACCC
*
46819515 AATTTGGTACCTAAACTTTTTTTGACCC
1 AATTTGGTATCTAAACTTTTTTTGACCC
*
46819543 AAATTGGTA
1 AATTTGGTA
46819552 CATGAACTTG
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
27 20 0.37
28 11 0.20
31 18 0.33
32 5 0.09
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.46
Consensus pattern (28 bp):
AATTTGGTATCTAAACTTTTTTTGACCC
Found at i:46819507 original size:59 final size:59
Alignment explanation
Indices: 46819426--46819588 Score: 188
Period size: 59 Copynumber: 2.7 Consensus size: 59
46819416 TTAAGATAGC
* * * * * *
46819426 ATTTGATATCTGAGCTTGACATTTTTTTTATAATTTGGTATCTAAA-TTTTTTTGACCCA
1 ATTTGGTATCTAAACTTAACATTTTTTCT-TAATTTGGTACCTAAACTTTTTTTGACCCA
46819485 ATTTGGTATCTAAACTTAACATTTTTTCTTAATTTGGTACCTAAACTTTTTTTGACCCA
1 ATTTGGTATCTAAACTTAACATTTTTTCTTAATTTGGTACCTAAACTTTTTTTGACCCA
* * *
46819544 AATTGGTA-CATGAACTTGGAA-TTTTTTTCTTAATTTGGTACCTAA
1 ATTTGGTATC-TAAACTT--AACATTTTTTCTTAATTTGGTACCTAA
46819589 GCTCTCTTTT
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
58 16 0.18
59 50 0.55
60 23 0.25
61 2 0.02
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.48
Consensus pattern (59 bp):
ATTTGGTATCTAAACTTAACATTTTTTCTTAATTTGGTACCTAAACTTTTTTTGACCCA
Found at i:46821542 original size:18 final size:19
Alignment explanation
Indices: 46821506--46821542 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
46821496 TTCATTTATG
46821506 TTTTTTTAACTTTCGTTTT
1 TTTTTTTAACTTTCGTTTT
*
46821525 TTTTTTTAATTTTC-TTTT
1 TTTTTTTAACTTTCGTTTT
46821543 GTTTCTCCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.11, C:0.08, G:0.03, T:0.78
Consensus pattern (19 bp):
TTTTTTTAACTTTCGTTTT
Found at i:46822565 original size:3 final size:3
Alignment explanation
Indices: 46822557--46822604 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
46822547 AAATTGTTAA
46822557 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
46822605 CTAGTTTTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:46823744 original size:21 final size:22
Alignment explanation
Indices: 46823710--46823758 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
46823700 AAAAAAACCC
*
46823710 AAAATTTTTCTAAAAATATAAT
1 AAAATTATTCTAAAAATATAAT
* *
46823732 AAAATTATT-TAAAAATTTCAT
1 AAAATTATTCTAAAAATATAAT
46823753 AAAATT
1 AAAATT
46823759 TTATGATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTATTCTAAAAATATAAT
Found at i:46825587 original size:18 final size:18
Alignment explanation
Indices: 46825560--46825597 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
46825550 TCCTGGTAAG
46825560 TTCATACGGTATGTTTGC
1 TTCATACGGTATGTTTGC
*
46825578 TTCATGCGGTATGTTTGC
1 TTCATACGGTATGTTTGC
46825596 TT
1 TT
46825598 TTTTATTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.13, C:0.16, G:0.24, T:0.47
Consensus pattern (18 bp):
TTCATACGGTATGTTTGC
Found at i:46827018 original size:43 final size:43
Alignment explanation
Indices: 46826966--46827104 Score: 235
Period size: 43 Copynumber: 3.2 Consensus size: 43
46826956 TTATGCGAAA
* *
46826966 AAGCGCCGCTGAAGGCCATGTTCTTTCGCGACGCTTTATCCAC
1 AAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTATCCAC
*
46827009 AAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTTTCCAC
1 AAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTATCCAC
46827052 AAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTATCCA-
1 AAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTATCCAC
46827094 AGAGCGCCGCT
1 A-AGCGCCGCT
46827105 AATATAACAG
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
42 1 0.01
43 90 0.99
ACGTcount: A:0.18, C:0.31, G:0.26, T:0.25
Consensus pattern (43 bp):
AAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTATCCAC
Found at i:46827434 original size:11 final size:11
Alignment explanation
Indices: 46827418--46827455 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
46827408 TTCCTTCGCT
46827418 TGCCTCGCTGC
1 TGCCTCGCTGC
46827429 TGCCTC-C-GC
1 TGCCTCGCTGC
46827438 TTGCCTCGCTGC
1 -TGCCTCGCTGC
46827450 TGCCTC
1 TGCCTC
46827456 CACTTTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 2 0.08
10 7 0.29
11 13 0.54
12 2 0.08
ACGTcount: A:0.00, C:0.47, G:0.24, T:0.29
Consensus pattern (11 bp):
TGCCTCGCTGC
Found at i:46827451 original size:24 final size:21
Alignment explanation
Indices: 46827404--46827456 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
46827394 CTTGTAGCCT
* *
46827404 CTGCTTCCTTCGCTTGCCTCG
1 CTGCTGCCTCCGCTTGCCTCG
46827425 CTGCTGCCTCCGCTTGCCTCG
1 CTGCTGCCTCCGCTTGCCTCG
46827446 CTGCTGCCTCC
1 CTGCTGCCTCC
46827457 ACTTTAAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.00, C:0.47, G:0.21, T:0.32
Consensus pattern (21 bp):
CTGCTGCCTCCGCTTGCCTCG
Found at i:46827556 original size:65 final size:66
Alignment explanation
Indices: 46827452--46827598 Score: 208
Period size: 66 Copynumber: 2.2 Consensus size: 66
46827442 CTCGCTGCTG
* *
46827452 CCTCCACTTTAAGTTGTATGTGGAGTTCTTCATA-TTTTTTTGAGACTCTGCTTCTCTCAATGCA
1 CCTCCTCTTTAAGTTGTATGTGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCAATGCA
46827516 A
66 A
* * **
46827517 CCTCCTCTTTAAGTTTTA-GATGGAGTTCATCATATTTTTTTTGAGCCTCTGCTTCTCTCGTTGC
1 CCTCCTCTTTAAGTTGTATG-TGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCAATGC
*
46827581 AG
65 AA
46827583 CCTCCTCTTTAAGTTG
1 CCTCCTCTTTAAGTTG
46827599 AGCAATTTGC
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
64 1 0.01
65 29 0.40
66 42 0.58
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.44
Consensus pattern (66 bp):
CCTCCTCTTTAAGTTGTATGTGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCAATGCA
A
Found at i:46832545 original size:22 final size:21
Alignment explanation
Indices: 46832519--46832560 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
46832509 ATTTCAAAAG
46832519 ATTATAAAATAATCACTTAATT
1 ATTATAAAATAATCA-TTAATT
46832541 ATTATAAAATAATCATTAAT
1 ATTATAAAATAATCATTAAT
46832561 ATAATTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTATAAAATAATCATTAATT
Found at i:46832617 original size:48 final size:48
Alignment explanation
Indices: 46832556--46832972 Score: 681
Period size: 48 Copynumber: 8.6 Consensus size: 48
46832546 AAAATAATCA
* *
46832556 TTAATATAATTATTTACTTTAATATAATTTAGTAATTAAATATTTAAT
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAAT
* * * * *
46832604 TTCATATAATTATTTAGTTTAATATAATTAAATAATTATATCTTTTAAA
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAAT-ATTTAAT
* *
46832653 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAAT-ATTTAAT
46832702 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAAT
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAAT
* *
46832750 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAAT
* * *
46832798 TTAATATAATTATTTACTTTAACATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAAT-ATTTAAT
46832847 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAAT
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAAT
46832895 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAAT
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAAT
46832943 TTAATATAATTATTTACTTTAATATAATTA
1 TTAATATAATTATTTACTTTAATATAATTA
46832973 TACTTTAATA
Statistics
Matches: 347, Mismatches: 20, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
48 210 0.61
49 137 0.39
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (48 bp):
TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAAT
Found at i:46832640 original size:8 final size:9
Alignment explanation
Indices: 46832622--46833006 Score: 116
Period size: 8 Copynumber: 43.6 Consensus size: 9
46832612 ATTATTTAGT
46832622 TTAATATAA
1 TTAATATAA
46832631 TTAA-ATAA
1 TTAATATAA
*
46832639 TT-ATAT-C
1 TTAATATAA
*
46832646 TT-TTA-AA
1 TTAATATAA
46832653 TTAATATAA
1 TTAATATAA
* *
46832662 TT-ATTTACT
1 TTAATATA-A
46832671 TTAATATAA
1 TTAATATAA
46832680 TTAA-ATAA
1 TTAATATAA
*
46832688 TTAA-AT-C
1 TTAATATAA
46832695 TT--T-TAA
1 TTAATATAA
46832701 CTTAATATAA
1 -TTAATATAA
* *
46832711 TT-ATTTACT
1 TTAATATA-A
46832720 TTAATATAA
1 TTAATATAA
46832729 TTAA-ATAA
1 TTAATATAA
46832737 TTAAATATTTAA
1 TT-AATA--TAA
46832749 TTTAATATAA
1 -TTAATATAA
* *
46832759 TT-ATTTACT
1 TTAATATA-A
46832768 TTAATATAA
1 TTAATATAA
46832777 TTAA-ATAA
1 TTAATATAA
*
46832785 TTAAATCTTTAA
1 TT-AA--TATAA
46832797 CTTAATATAA
1 -TTAATATAA
* *
46832807 TT-ATTTACT
1 TTAATATA-A
*
46832816 TTAACATAA
1 TTAATATAA
46832825 TTAA-ATAA
1 TTAATATAA
*
46832833 TTAA-AT-C
1 TTAATATAA
46832840 TT--T-TAA
1 TTAATATAA
46832846 CTTAATATAA
1 -TTAATATAA
* *
46832856 TT-ATTTACT
1 TTAATATA-A
46832865 TTAATATAA
1 TTAATATAA
46832874 TTAA-ATAA
1 TTAATATAA
46832882 TTAAATATTTAA
1 TT-AATA--TAA
46832894 TTTAATATAA
1 -TTAATATAA
* *
46832904 TT-ATTTACT
1 TTAATATA-A
46832913 TTAATATAA
1 TTAATATAA
46832922 TTAA-ATAA
1 TTAATATAA
46832930 TTAAATATTTAA
1 TT-AATA--TAA
46832942 TTTAATATAA
1 -TTAATATAA
* *
46832952 TT-ATTTACT
1 TTAATATA-A
46832961 TTAATATAA
1 TTAATATAA
46832970 TT-ATACT--
1 TTAATA-TAA
46832977 TTAATATAA
1 TTAATATAA
46832986 TTAA-ATAA
1 TTAATATAA
*
46832994 TTAA-ATAT
1 TTAATATAA
46833002 TTAAT
1 TTAAT
46833007 TATGTTAAGG
Statistics
Matches: 281, Mismatches: 40, Indels: 110
0.65 0.09 0.26
Matches are distributed among these distances:
5 2 0.01
7 18 0.06
8 103 0.37
9 75 0.27
10 49 0.17
12 26 0.09
13 8 0.03
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (9 bp):
TTAATATAA
Found at i:46832663 original size:97 final size:96
Alignment explanation
Indices: 46832555--46832972 Score: 674
Period size: 97 Copynumber: 4.3 Consensus size: 96
46832545 TAAAATAATC
* * * *
46832555 ATTAATATAATTATTTACTTTAATATAATTTAGTAATTAAATATTTAATTTCATATAATTATTTA
1 ATTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAACTTAATATAATTATTTA
* * *
46832620 GTTTAATATAATTAAATAATTATATCTTTTAA
66 CTTTAATATAATTAAATAATTAAAT-ATTTAA
*
46832652 ATTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTATTT
1 ATTAATATAATTATTTACTTTAATATAATTAAATAATTAAAT-ATTTAACTTAATATAATTATTT
46832717 ACTTTAATATAATTAAATAATTAAATATTTAA
65 ACTTTAATATAATTAAATAATTAAATATTTAA
* *
46832749 TTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTAACTTAATATAATTATTTA
1 ATTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAACTTAATATAATTATTTA
* *
46832814 CTTTAACATAATTAAATAATTAAATCTTTTAA
66 CTTTAATATAATTAAATAATTAAAT-ATTTAA
* *
46832846 CTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTA
1 ATTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAACTTAATATAATTATTTA
46832911 CTTTAATATAATTAAATAATTAAATATTTAA
66 CTTTAATATAATTAAATAATTAAATATTTAA
*
46832942 TTTAATATAATTATTTACTTTAATATAATTA
1 ATTAATATAATTATTTACTTTAATATAATTA
46832973 TACTTTAATA
Statistics
Matches: 301, Mismatches: 18, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
96 81 0.27
97 177 0.59
98 43 0.14
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (96 bp):
ATTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAACTTAATATAATTATTTA
CTTTAATATAATTAAATAATTAAATATTTAA
Found at i:46832876 original size:145 final size:145
Alignment explanation
Indices: 46832556--46832972 Score: 744
Period size: 145 Copynumber: 2.9 Consensus size: 145
46832546 AAAATAATCA
* * * *
46832556 TTAATATAATTATTTACTTTAATATAATTTAGTAATTAAATATTTAATTTCATATAATTATTTAG
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTAC
*
46832621 TTTAATATAATTAAATAATTATATCTTTTAAATTAATATAATTATTTACTTTAATATAATTAAAT
66 TTTAATATAATTAAATAATTAAATC-TTTAAATTAATATAATTATTTACTTTAATATAATTAAAT
46832686 AATTAAATCTTTTAAC
130 AATTAAATCTTTTAAC
46832702 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTAC
* *
46832767 TTTAATATAATTAAATAATTAAATCTTTAACTTAATATAATTATTTACTTTAACATAATTAAATA
66 TTTAATATAATTAAATAATTAAATCTTTAAATTAATATAATTATTTACTTTAATATAATTAAATA
46832832 ATTAAATCTTTTAAC
131 ATTAAATCTTTTAAC
46832847 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTAC
* *
46832912 TTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTA
66 TTTAATATAATTAAATAATTAAATCTTTAAATTAATATAATTATTTACTTTAATATAATTA
46832973 TACTTTAATA
Statistics
Matches: 261, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
145 176 0.67
146 85 0.33
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (145 bp):
TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTAC
TTTAATATAATTAAATAATTAAATCTTTAAATTAATATAATTATTTACTTTAATATAATTAAATA
ATTAAATCTTTTAAC
Found at i:46832906 original size:30 final size:31
Alignment explanation
Indices: 46832557--46832906 Score: 156
Period size: 30 Copynumber: 10.9 Consensus size: 31
46832547 AAATAATCAT
* * * *
46832557 TAATATAATTATTTACTTTAATATAATTTAG
1 TAATATAAATATTTAATTTAATATAATTAAA
* **
46832588 TAAT-TAAATATTTAATTTCATATAATTATT
1 TAATATAAATATTTAATTTAATATAATTAAA
* * * **
46832618 TAGTTTAATATAATTAAATAATT-ATATCTTTTAAA
1 TAATATAA-AT-ATTTAAT--TTAATAT-AATTAAA
* *
46832653 TTAATATAATTATTTACTTTAATATAATTAAA
1 -TAATATAAATATTTAATTTAATATAATTAAA
* * **
46832685 TAAT-TAAATCTTTTAACTTAATATAATTATT
1 TAATATAAAT-ATTTAATTTAATATAATTAAA
* * * * *
46832716 TACTTTAATATAATTAAATAATTAA-ATATTTAATT
1 TAATATAA-AT-ATTTAAT--TTAATATAATTAA-A
* *
46832751 TAATATAATTATTTACTTTAATATAATTAAA
1 TAATATAAATATTTAATTTAATATAATTAAA
* * **
46832782 TAAT-TAAATCTTTAACTTAATATAATTATT
1 TAATATAAATATTTAATTTAATATAATTAAA
* * * ** *
46832812 TACTTTAACATAATTAAATAATTAA-ATCTTTTAACT
1 TAATATAA-AT-ATTTAAT--TTAATAT-AATTAA-A
* *
46832848 TAATATAATTATTTACTTTAATATAATTAAA
1 TAATATAAATATTTAATTTAATATAATTAAA
46832879 TAAT-TAAATATTTAATTTAATATAATTA
1 TAATATAAATATTTAATTTAATATAATTA
46832907 TTTACTTTAA
Statistics
Matches: 234, Mismatches: 62, Indels: 47
0.68 0.18 0.14
Matches are distributed among these distances:
30 72 0.31
31 45 0.19
32 29 0.12
33 27 0.12
34 23 0.10
35 25 0.11
36 13 0.06
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (31 bp):
TAATATAAATATTTAATTTAATATAATTAAA
Found at i:46834582 original size:44 final size:43
Alignment explanation
Indices: 46834519--46834664 Score: 168
Period size: 44 Copynumber: 3.3 Consensus size: 43
46834509 GATCGGCTCA
* *
46834519 AGAAGCGGGTTTTGGGGGTGAAGAGCGAACGGAGTGAGGGGAAG
1 AGAAGCGGGTTTTAGGGGTGAAGAG-GAACGGAGTGAGGGGAAC
*
46834563 AGAAGCGGGTTTTAGGGGTGAAGAGGGAACGGGGTGAGGGGAAC
1 AGAAGCGGGTTTTAGGGGTGAAGA-GGAACGGAGTGAGGGGAAC
* * * *
46834607 AGAAGCGGGTTTT-GTAGGTGAAGAGGCAATGGAGTGAGGGAAAT
1 AGAAGCGGGTTTTAG-GGGTGAAGAGG-AACGGAGTGAGGGGAAC
* *
46834651 AAAAGAGGGTTTTA
1 AGAAGCGGGTTTTA
46834665 CGATTTGAGG
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
43 3 0.03
44 84 0.95
45 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.47, T:0.17
Consensus pattern (43 bp):
AGAAGCGGGTTTTAGGGGTGAAGAGGAACGGAGTGAGGGGAAC
Found at i:46834586 original size:23 final size:23
Alignment explanation
Indices: 46834519--46834587 Score: 58
Period size: 23 Copynumber: 3.1 Consensus size: 23
46834509 GATCGGCTCA
*
46834519 AGAAGCGGGTTTTGGGGGTGAAG
1 AGAAGCGGGTTTTAGGGGTGAAG
*
46834542 AGCGAA-CGGAG--TGA-GGG-GAAG
1 A--GAAGCGG-GTTTTAGGGGTGAAG
46834563 AGAAGCGGGTTTTAGGGGTGAAG
1 AGAAGCGGGTTTTAGGGGTGAAG
46834586 AG
1 AG
46834588 GGAACGGGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 16
0.65 0.06 0.30
Matches are distributed among these distances:
19 4 0.11
20 3 0.09
21 7 0.20
22 6 0.17
23 8 0.23
24 3 0.09
25 4 0.11
ACGTcount: A:0.28, C:0.06, G:0.51, T:0.16
Consensus pattern (23 bp):
AGAAGCGGGTTTTAGGGGTGAAG
Found at i:46834602 original size:23 final size:22
Alignment explanation
Indices: 46834533--46834603 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 22
46834523 GCGGGTTTTG
*
46834533 GGGGTGAAGAGCGAACGGAGTGA
1 GGGGTGAAGAG-GAACGGGGTGA
* *
46834556 -GGG-GAAGA-GAAGCGGGTTTTA
1 GGGGTGAAGAGGAA-CGGG-GTGA
46834577 GGGGTGAAGAGGGAACGGGGTGA
1 GGGGTGAAGA-GGAACGGGGTGA
46834600 GGGG
1 GGGG
46834604 AACAGAAGCG
Statistics
Matches: 37, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
19 3 0.08
20 3 0.08
21 7 0.19
22 6 0.16
23 11 0.30
24 4 0.11
25 3 0.08
ACGTcount: A:0.27, C:0.06, G:0.56, T:0.11
Consensus pattern (22 bp):
GGGGTGAAGAGGAACGGGGTGA
Found at i:46834691 original size:26 final size:24
Alignment explanation
Indices: 46834653--46834725 Score: 110
Period size: 26 Copynumber: 2.9 Consensus size: 24
46834643 AGGGAAATAA
46834653 AAGAGGGTTTTACGATTTGAGGGTG
1 AAGAGGGTTTTACGATTTG-GGGTG
*
46834678 AAGAGGGGTATTACGATTTTGGGGTG
1 AAGA-GGGTTTTACGA-TTTGGGGTG
46834704 AAGAGGGTTTTACGATTTGGGG
1 AAGAGGGTTTTACGATTTGGGG
46834726 GTGATGCATG
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
24 7 0.16
25 14 0.32
26 19 0.43
27 4 0.09
ACGTcount: A:0.23, C:0.04, G:0.41, T:0.32
Consensus pattern (24 bp):
AAGAGGGTTTTACGATTTGGGGTG
Found at i:46834726 original size:25 final size:25
Alignment explanation
Indices: 46834653--46834729 Score: 118
Period size: 25 Copynumber: 3.0 Consensus size: 25
46834643 AGGGAAATAA
*
46834653 AAGAGGGTTTTACGATTTGAGGGTG
1 AAGAGGGTTTTACGATTTGGGGGTG
* *
46834678 AAGAGGGGTATTACGATTTTGGGGTG
1 AAGA-GGGTTTTACGATTTGGGGGTG
46834704 AAGAGGGTTTTACGATTTGGGGGTG
1 AAGAGGGTTTTACGATTTGGGGGTG
46834729 A
1 A
46834730 TGCATGCAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 24 0.52
26 22 0.48
ACGTcount: A:0.23, C:0.04, G:0.42, T:0.31
Consensus pattern (25 bp):
AAGAGGGTTTTACGATTTGGGGGTG
Found at i:46834976 original size:41 final size:41
Alignment explanation
Indices: 46834840--46835152 Score: 185
Period size: 42 Copynumber: 7.4 Consensus size: 41
46834830 GCTTATAGAA
* * **
46834840 AAGCGCCGCTAATG-CAC-ACATTTAGCGGCGCTTAT-TAGAA
1 AAGCGCCGCTAATGAC-CGACCTTTAGCGGCGCTT-TGTGGGT
* * * ***
46834880 AAGCGCCGCTAATAACCTGACCTTTACCGGCGCTTTCTATAT
1 AAGCGCCGCTAATGACC-GACCTTTAGCGGCGCTTTGTGGGT
**
46834922 AAGCGTTGCTAATGACACGACCTTTAGCGGCG-TTTGTGGGT
1 AAGCGCCGCTAATGAC-CGACCTTTAGCGGCGCTTTGTGGGT
* **
46834963 AAGCGCCGCTAATGACTCCATTTTTAGCGGCGCTTT-T-GGT
1 AAGCGCCGCTAATGAC-CGACCTTTAGCGGCGCTTTGTGGGT
* *
46835003 GAAGTGCCGCTAATGACCAGACCATTAGCGGCGCTTTTGGATAAGCGCCGCT
1 -AAGCGCCGCTAATGACC-GACCTTTAGCGGCGC-TTT-G-T--G-G--G-T
** * *
46835055 ATCCAGCCGCTAATGACCCGACTTTTAGTGGCGC-TTGTGGGT
1 AAGC-GCCGCTAATGA-CCGACCTTTAGCGGCGCTTTGTGGGT
*
46835097 AAAGCGCCGCTAAAGACCCGACCTTTAGCGGCGCTTTGT--GT
1 -AAGCGCCGCTAATGA-CCGACCTTTAGCGGCGCTTTGTGGGT
46835138 AAGCGCCGCTAATGA
1 AAGCGCCGCTAATGA
46835153 TTTACCTTTT
Statistics
Matches: 214, Mismatches: 36, Indels: 46
0.72 0.12 0.16
Matches are distributed among these distances:
40 32 0.15
41 62 0.29
42 76 0.36
43 8 0.04
45 2 0.01
46 1 0.00
48 1 0.00
49 2 0.01
50 2 0.01
51 2 0.01
52 24 0.11
53 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.26
Consensus pattern (41 bp):
AAGCGCCGCTAATGACCGACCTTTAGCGGCGCTTTGTGGGT
Found at i:46835088 original size:52 final size:53
Alignment explanation
Indices: 46835008--46835108 Score: 141
Period size: 52 Copynumber: 1.9 Consensus size: 53
46834998 TTGGTGAAGT
*
46835008 GCCGCTAATGACCAGACCATTAGCGGCGCTTTTGGAT-AAGCGCCGCTATCCA
1 GCCGCTAATGACCAGACCATTAGCGGCGCTTGTGGATAAAGCGCCGCTATCCA
* ** * *
46835060 GCCGCTAATGACCCGACTTTTAGTGGCGCTTGTGGGTAAAGCGCCGCTA
1 GCCGCTAATGACCAGACCATTAGCGGCGCTTGTGGATAAAGCGCCGCTA
46835109 AAGACCCGAC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 31 0.74
53 11 0.26
ACGTcount: A:0.21, C:0.29, G:0.28, T:0.23
Consensus pattern (53 bp):
GCCGCTAATGACCAGACCATTAGCGGCGCTTGTGGATAAAGCGCCGCTATCCA
Found at i:46835141 original size:93 final size:93
Alignment explanation
Indices: 46834967--46835148 Score: 244
Period size: 93 Copynumber: 2.0 Consensus size: 93
46834957 GTGGGTAAGC
* * * * *
46834967 GCCGCTAATGACTCCATTTTTAGCGGCGCTTTTGGTGAAGTGCCGCTAATGACCAGACCATTAGC
1 GCCGCTAATGACTCCACTTTTAGCGGCGCTTTGGGTAAAGCGCCGCTAAAGACCAGACCATTAGC
46835032 GGCGCTTTTGGATAAGCGCCGCTATCCA
66 GGCGCTTTTGGATAAGCGCCGCTATCCA
* * *
46835060 GCCGCTAATGAC-CCGACTTTTAGTGGCGCTTGTGGGTAAAGCGCCGCTAAAGACCCGACCTTTA
1 GCCGCTAATGACTCC-ACTTTTAGCGGCGCTT-TGGGTAAAGCGCCGCTAAAGACCAGACCATTA
46835124 GCGGCGC-TTTGTG-TAAGCGCCGCTA
64 GCGGCGCTTTTG-GATAAGCGCCGCTA
46835149 ATGATTTACC
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
92 2 0.03
93 42 0.54
94 34 0.44
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.25
Consensus pattern (93 bp):
GCCGCTAATGACTCCACTTTTAGCGGCGCTTTGGGTAAAGCGCCGCTAAAGACCAGACCATTAGC
GGCGCTTTTGGATAAGCGCCGCTATCCA
Found at i:46835168 original size:39 final size:39
Alignment explanation
Indices: 46835117--46835230 Score: 131
Period size: 40 Copynumber: 2.8 Consensus size: 39
46835107 TAAAGACCCG
*
46835117 ACCTTTAGCGGCGCTTTGTGTAAGCGCCGCTAATGATTT
1 ACCTTTTGCGGCGCTTTGTGTAAGCGCCGCTAATGATTT
* * *
46835156 ACCTTTTGCGGCGCATTAG-GAAAAGCGCCGCTAATGCTTT
1 ACCTTTTGCGGCGC-TTTGTG-TAAGCGCCGCTAATGATTT
* *
46835196 ACCTTTTACGGCGCTTTGTGTCCAAACGCCGCTAA
1 ACCTTTTGCGGCGCTTTGTGT--AAGCGCCGCTAA
46835231 AAATGCCGCT
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
39 17 0.27
40 34 0.55
41 11 0.18
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.30
Consensus pattern (39 bp):
ACCTTTTGCGGCGCTTTGTGTAAGCGCCGCTAATGATTT
Found at i:46842037 original size:70 final size:67
Alignment explanation
Indices: 46841906--46842037 Score: 158
Period size: 70 Copynumber: 1.9 Consensus size: 67
46841896 ATAAGCAATA
* * ** * *
46841906 TAATGATTTTGTCTTTTAACTTAATGGGTAAATTTTTATCAAAATGACGTAATTTTACTTTTTAA
1 TAATGATTTTGACTTTTAACTTAAAGGGTAAACATTTATCAAAACGACGTAAGTTTACTTTTTAA
46841971 CT
66 CT
* *
46841973 TAATGGTTTTGACTTTTAACTTTAGAAAGGGTAAACATTTATCAAAACGACGT-AGTTTACCTTT
1 TAATGATTTTGACTTTTAAC-TT--AAAGGGTAAACATTTATCAAAACGACGTAAGTTTACTTTT
46842037 T
63 T
46842038 CTTATTTGGA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
67 18 0.33
68 2 0.04
69 10 0.19
70 24 0.44
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.45
Consensus pattern (67 bp):
TAATGATTTTGACTTTTAACTTAAAGGGTAAACATTTATCAAAACGACGTAAGTTTACTTTTTAA
CT
Found at i:46845706 original size:6 final size:6
Alignment explanation
Indices: 46845677--46845738 Score: 54
Period size: 6 Copynumber: 10.3 Consensus size: 6
46845667 AGCAGATGAT
* * ** * *
46845677 CAGATA CAAATA CAAATA TGGATA CAGATA TAGACT- CAGATA CAAATA
1 CAGATA CAGATA CAGATA CAGATA CAGATA CAGA-TA CAGATA CAGATA
46845725 CAGATA CAGATA CA
1 CAGATA CAGATA CA
46845739 AATGCAGTTT
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
5 1 0.02
6 42 0.95
7 1 0.02
ACGTcount: A:0.52, C:0.16, G:0.13, T:0.19
Consensus pattern (6 bp):
CAGATA
Found at i:46845718 original size:18 final size:18
Alignment explanation
Indices: 46845677--46845741 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
46845667 AGCAGATGAT
*
46845677 CAGATACAAATACAAATA
1 CAGATACAAATACAGATA
** * *
46845695 TGGATACAGATATAGACT-
1 CAGATACAAATACAGA-TA
46845713 CAGATACAAATACAGATA
1 CAGATACAAATACAGATA
46845731 CAGATACAAAT
1 CAGATACAAAT
46845742 GCAGTTTCCT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
17 1 0.03
18 34 0.94
19 1 0.03
ACGTcount: A:0.52, C:0.15, G:0.12, T:0.20
Consensus pattern (18 bp):
CAGATACAAATACAGATA
Found at i:46851414 original size:29 final size:29
Alignment explanation
Indices: 46851382--46851517 Score: 120
Period size: 29 Copynumber: 4.7 Consensus size: 29
46851372 AAATCAGGGT
*
46851382 TAAAAATAG-ATTTTTGGAAAGTTCGGGGG
1 TAAAAATAGAAATTTTGGAAA-TTCGGGGG
* * * *
46851411 TAAAAATGGTAATTTTGGTAAAATCGGGGT
1 TAAAAATAGAAATTTTGG-AAATTCGGGGG
46851441 TAAAAAT-GAAATTTTGGAAAGTTCGGGGG
1 TAAAAATAGAAATTTTGGAAA-TTCGGGGG
* * *
46851470 T-AAAATGGTAATTTTGGTGAAA-TCGGGGT
1 TAAAAATAGAAATTTT-G-GAAATTCGGGGG
46851499 TAAAAATAG-AATTTTGGAA
1 TAAAAATAGAAATTTTGGAA
46851518 TTTTGGGGTC
Statistics
Matches: 90, Mismatches: 10, Indels: 16
0.78 0.09 0.14
Matches are distributed among these distances:
27 3 0.03
28 9 0.10
29 44 0.49
30 27 0.30
31 7 0.08
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.32
Consensus pattern (29 bp):
TAAAAATAGAAATTTTGGAAATTCGGGGG
Found at i:46851503 original size:58 final size:58
Alignment explanation
Indices: 46851345--46851517 Score: 258
Period size: 59 Copynumber: 2.9 Consensus size: 58
46851335 TTTTGGATAC
* ** * *
46851345 TCGGGGGCAAAATGGTAATTTTTTATGAAATCAGGGTTAAAAATAGATTTTTGGAAAGT
1 TCGGGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATAGAATTTTGGAAAGT
*
46851404 TCGGGGGTAAAAATGGTAATTTTGGTAAAATCGGGGTTAAAAAT-GAAATTTTGGAAAGT
1 TCGGGGGT-AAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATAG-AATTTTGGAAAGT
46851463 TCGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATAGAATTTTGGAA
1 TCGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATAGAATTTTGGAA
46851518 TTTTGGGGTC
Statistics
Matches: 104, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
58 45 0.43
59 49 0.47
60 10 0.10
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.32
Consensus pattern (58 bp):
TCGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATAGAATTTTGGAAAGT
Found at i:46851856 original size:162 final size:162
Alignment explanation
Indices: 46851613--46852114 Score: 736
Period size: 162 Copynumber: 3.1 Consensus size: 162
46851603 AGGCATCCAG
* * * * * * *
46851613 CAGTCAAGGGACTAAATTGTAAATCTGGAAAAATTCTTGGGCTAATTTTATAATTAAATAAAAGT
1 CAGTCAAAGGATTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGT
* * *
46851678 TGATTTAGGAATTAAATTAAAACAAATTAAAAATAACAGGGACTAGATACATAAATAAGCTAAAA
66 TGATTTAGGGATTAAATTAAAACAAATTAAAAATAACAGGGACTAAATACATAAATAAGCCAAAA
* *
46851743 AGTGACACGTGGCAGCCCCTGGTGTAGTCAAA
131 AGTGACACGTGGCAGCCTCTGGTGCAGTCAAA
* *
46851775 TAGTCAAAGGATTAATTTATAAATCTTTAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGT
1 CAGTCAAAGGATTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGT
* *
46851840 TGATTTAGGGATTAAATTAAAACAAATTAAAAAACAACAGGGACTAAATACATAAATCAGCCAAA
66 TGATTTAGGGATTAAATTAAAACAAATT-AAAAATAACAGGGACTAAATACATAAATAAGCCAAA
46851905 AAGTGACACGTGGCAGCCTCTGGTGCAGTCAAA
130 AAGTGACACGTGGCAGCCTCTGGTGCAGTCAAA
** *
46851938 CAGTCAAAGGATTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAGCAGAAGT
1 CAGTCAAAGGATTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGT
* * * * *
46852003 TGATTT-GAGGACTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAAACCAAA
66 TGATTTAG-GGATTAAATTAAAACAAATTAAAAATAACAGGGACTAAATACATAAATAAGCCAAA
* *
46852067 AAGTGACACGTGGCGGCCTCTGGTGCAGTCCAA
130 AAGTGACACGTGGCAGCCTCTGGTGCAGTCAAA
*
46852100 CAGTCAAAAGATTAA
1 CAGTCAAAGGATTAA
46852115 ATTGAAAACC
Statistics
Matches: 307, Mismatches: 31, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
162 159 0.52
163 148 0.48
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.26
Consensus pattern (162 bp):
CAGTCAAAGGATTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGT
TGATTTAGGGATTAAATTAAAACAAATTAAAAATAACAGGGACTAAATACATAAATAAGCCAAAA
AGTGACACGTGGCAGCCTCTGGTGCAGTCAAA
Found at i:46853071 original size:9 final size:9
Alignment explanation
Indices: 46853059--46853095 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
46853049 TTATTTGTTT
46853059 TATTATTAA
1 TATTATTAA
46853068 TATTATTAA
1 TATTATTAA
46853077 TATTATTAA
1 TATTATTAA
46853086 TATTATTAA
1 TATTATTAA
46853095 T
1 T
46853096 GCTATTAACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TATTATTAA
Found at i:46853101 original size:18 final size:18
Alignment explanation
Indices: 46853062--46853103 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
46853052 TTTGTTTTAT
*
46853062 TATTAATATTATTAATAT
1 TATTAATATTATTAATAC
*
46853080 TATTAATATTATTAATGC
1 TATTAATATTATTAATAC
46853098 TATTAA
1 TATTAA
46853104 CGCTTCTGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
TATTAATATTATTAATAC
Found at i:46853879 original size:6 final size:6
Alignment explanation
Indices: 46853850--46853897 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
46853840 TTTTATGGAC
* *
46853850 TTTTAA TGTTTAA ATTTAGTA TTTTAA TTTTAA TTTTAA TTTAAA TTT
1 TTTTAA T-TTTAA TTTTA--A TTTTAA TTTTAA TTTTAA TTTTAA TTT
46853898 AAGGTAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
6 26 0.72
7 5 0.14
8 5 0.14
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (6 bp):
TTTTAA
Found at i:46853898 original size:6 final size:6
Alignment explanation
Indices: 46853858--46853949 Score: 73
Period size: 6 Copynumber: 15.2 Consensus size: 6
46853848 ACTTTTAATG
* * * * **
46853858 TTTAAA TTTAGTA TTTTAA TTTTAA TTTTAA TTTAAA TTT-AA GGTAAA
1 TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
46853906 TTTAAA TAATTAAA TTTAAA TTTAAGA --TAAA TTTAAA TTTAAA T
1 TTTAAA T--TTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA T
46853950 CAATTTAATT
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
4 1 0.01
5 6 0.08
6 53 0.75
7 5 0.07
8 6 0.08
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:46853898 original size:11 final size:11
Alignment explanation
Indices: 46853872--46853949 Score: 61
Period size: 11 Copynumber: 7.1 Consensus size: 11
46853862 AATTTAGTAT
*
46853872 TTTAATTTTAAT
1 TTTAA-TTTAAA
46853884 TTTAATTTAAA
1 TTTAATTTAAA
**
46853895 TTTAAGGTAAA
1 TTTAATTTAAA
*
46853906 TTTAA-AT-AA
1 TTTAATTTAAA
*
46853915 TTAAATTTAAA
1 TTTAATTTAAA
**
46853926 TTTAAGATAAA
1 TTTAATTTAAA
46853937 TTTAAATTTAAA
1 TTT-AATTTAAA
46853949 T
1 T
46853950 CAATTTAATT
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
9 6 0.12
10 2 0.04
11 32 0.62
12 12 0.23
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:46853898 original size:17 final size:17
Alignment explanation
Indices: 46853872--46853947 Score: 86
Period size: 17 Copynumber: 4.6 Consensus size: 17
46853862 AATTTAGTAT
* * *
46853872 TTTAATTTTAATTTTAA
1 TTTAAATTTAAGTTAAA
*
46853889 TTTAAATTTAAGGTAAA
1 TTTAAATTTAAGTTAAA
46853906 TTTAAA--TAA-TTAAA
1 TTTAAATTTAAGTTAAA
*
46853920 TTTAAATTTAAGATAAA
1 TTTAAATTTAAGTTAAA
46853937 TTTAAATTTAA
1 TTTAAATTTAA
46853948 ATCAATTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
14 10 0.20
15 3 0.06
16 3 0.06
17 34 0.68
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (17 bp):
TTTAAATTTAAGTTAAA
Found at i:46853965 original size:16 final size:16
Alignment explanation
Indices: 46853887--46853957 Score: 65
Period size: 17 Copynumber: 4.4 Consensus size: 16
46853877 TTTTAATTTT
* *
46853887 AATTTAAATTTAAGGTA
1 AATTTAAATTTAA-ATC
* *
46853904 AATTTAAA--TAATTA
1 AATTTAAATTTAAATC
*
46853918 AATTTAAATTTAAGATA
1 AATTTAAATTTAA-ATC
46853935 AATTTAAATTTAAATC
1 AATTTAAATTTAAATC
46853951 AATTTAA
1 AATTTAA
46853958 TTCTAAATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
14 10 0.21
15 3 0.06
16 12 0.25
17 23 0.48
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.42
Consensus pattern (16 bp):
AATTTAAATTTAAATC
Found at i:46854387 original size:76 final size:76
Alignment explanation
Indices: 46854245--46854828 Score: 852
Period size: 76 Copynumber: 7.8 Consensus size: 76
46854235 TGCTCTTCAG
* * *
46854245 AGAGATAAGGACTTGCTATCCAACT-TACTTCAATTTCAAGAGGATAGGAAAA-GATTTTGCTCT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATA-GAAAATGATCTTGCTCT
46854308 TACTTCAATTTC
65 TACTTCAATTTC
* * *
46854320 AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGATGATAGAAAATGATCTTGGTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGAAAATGATCTTGCTCTT
46854385 ACTTCAATTTC
66 ACTTCAATTTC
* *
46854396 AGAGATAAAGACGTGTTATCC-ATTCTACTTCAATTTCAAGAGGATAGGAAAA-GATCTTGCTCT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATA-GAAAATGATCTTGCTCT
46854459 TACTTCAATTTC
65 TACTTCAATTTC
* * * **
46854471 AGAGATAAAGATTTGTTATCCAACTCTACTTCAATTTCAAGAAGATAGGAAATGATCTTATTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGAAAATGATCTTGCTCTT
46854536 ACTTCAATTTC
66 ACTTCAATTTC
* * *
46854547 AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGACCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGAAAATGATCTTGCTCTT
46854612 ACTTCAATTTC
66 ACTTCAATTTC
* *
46854623 AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGAAAATGATCTTGCTCTT
46854688 ACTTCAATTTC
66 ACTTCAATTTC
* * *
46854699 AAAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAAAGGATAGGAAAA-GATCTTG--C-
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATA-GAAAATGATCTTGCTCT
46854759 T-CTT--ATTT-
65 TACTTCAATTTC
*
46854767 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGAAAATGATCTTGCT
46854829 GCGGTCTGAT
Statistics
Matches: 466, Mismatches: 33, Indels: 24
0.89 0.06 0.05
Matches are distributed among these distances:
68 23 0.05
69 35 0.08
71 3 0.01
72 1 0.00
73 1 0.00
75 127 0.27
76 276 0.59
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (76 bp):
AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGAAAATGATCTTGCTCTT
ACTTCAATTTC
Found at i:46854524 original size:151 final size:151
Alignment explanation
Indices: 46854245--46854828 Score: 914
Period size: 151 Copynumber: 3.9 Consensus size: 151
46854235 TGCTCTTCAG
* * * *
46854245 AGAGATAAGGACTTGCTATCCAACT-TACTTCAATTTCAAGAGGATAGGAAAAGATTTTGCTCTT
1 AGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
* *
46854309 ACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGATGATAGAAAATG
65 ACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATG
*
46854374 ATCTTGGTCTTACTTCAATTTC
130 ATCTTGCTCTTACTTCAATTTC
*
46854396 AGAGATAAAGACGTGTTATCCATTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTA
1 AGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTA
* * *
46854461 CTTCAATTTCAGAGATAAAGATTTGTTATCCAACTCTACTTCAATTTCAAGAAGATAGGAAATGA
66 CTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGA
**
46854526 TCTTATTCTTACTTCAATTTC
131 TCTTGCTCTTACTTCAATTTC
* * * *
46854547 AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGACCTTGCTCTT
1 AGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
46854612 ACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATG
65 ACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATG
46854677 ATCTTGCTCTTACTTCAATTTC
130 ATCTTGCTCTTACTTCAATTTC
* *
46854699 AAAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAAAGGATAGGAAAAGATCTTG--C-T-
1 AGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTA
*
46854760 CTT--ATTT-AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGA
66 CTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGA
46854822 TCTTGCT
131 TCTTGCT
46854829 GCGGTCTGAT
Statistics
Matches: 403, Mismatches: 28, Indels: 11
0.91 0.06 0.02
Matches are distributed among these distances:
144 61 0.15
145 4 0.01
147 3 0.01
148 1 0.00
149 1 0.00
150 2 0.00
151 191 0.47
152 140 0.35
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (151 bp):
AGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTA
CTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGA
TCTTGCTCTTACTTCAATTTC
Found at i:46867094 original size:29 final size:29
Alignment explanation
Indices: 46867062--46867154 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 29
46867052 AATTTAGGGG
46867062 TAAAATGGTAATTTTGGTGAAATCGAGGT
1 TAAAATGGTAATTTTGGTGAAATCGAGGT
** *
46867091 TAAAAAATGG-AATTTT-G-GAAAGTTTAGGGG
1 T--AAAATGGTAATTTTGGTGAAA-TCGA-GGT
*
46867121 TAAAATGGTAATTTTGATGAAATCG-GGAT
1 TAAAATGGTAATTTTGGTGAAATCGAGG-T
46867150 TAAAA
1 TAAAA
46867155 ATAGAATTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
28 13 0.27
29 15 0.31
30 10 0.20
31 11 0.22
ACGTcount: A:0.40, C:0.02, G:0.26, T:0.32
Consensus pattern (29 bp):
TAAAATGGTAATTTTGGTGAAATCGAGGT
Found at i:46867096 original size:58 final size:58
Alignment explanation
Indices: 46866999--46867389 Score: 457
Period size: 58 Copynumber: 6.9 Consensus size: 58
46866989 TGGATGCCCG
* * * * * * *
46866999 GGGGAAAAATAGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTCTAGAAAATTTA
1 GGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
* *
46867058 GGGGTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAAATGGAATTTTGGAAAGTTTA
1 GGGGTAAAATGGTAATTTTGGTGAAATCGGGGTT-AAAAATGGAATTTTGGAAAGTTCA
* * * * *
46867117 GGGGTAAAATGGTAATTTTGATGAAATCGGGATTAAAAATAGAATTTTGGAGAGTTCG
1 GGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
* * *
46867175 GGGGCAAAATGGCT-TTTTTGGTGAAATC------------GGAATTTTGGAAAGTTCG
1 GGGGTAAAATGG-TAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
* *
46867221 GGTGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATAGAATTTTGGAAAGTTCA
1 GGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
* *
46867280 GGGGTAAAATGGTGATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCG
1 GGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
*
46867338 GGGGTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAA
1 GGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAA
46867390 TTTTAGGGTC
Statistics
Matches: 286, Mismatches: 30, Indels: 33
0.82 0.09 0.09
Matches are distributed among these distances:
45 1 0.00
46 26 0.09
47 13 0.05
58 151 0.53
59 95 0.33
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.31
Consensus pattern (58 bp):
GGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
Found at i:46867125 original size:30 final size:29
Alignment explanation
Indices: 46867028--46867125 Score: 76
Period size: 30 Copynumber: 3.3 Consensus size: 29
46867018 TGGTGAAATC
* * *
46867028 GGGGTCAAAAATGGAATTCTAGAAAATTTA
1 GGGGTAAAAAATGGAATT-TTGGAAATTTA
**
46867058 GGGGT--AAAATGGTAATTTTGGTGAAATCGA
1 GGGGTAAAAAATGG-AATTTT-G-GAAATTTA
*
46867088 -GGTTAAAAAATGGAATTTTGGAAAGTTTA
1 GGGGTAAAAAATGGAATTTTGGAAA-TTTA
46867117 GGGGTAAAA
1 GGGGTAAAA
46867126 TGGTAATTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
28 12 0.23
29 11 0.21
30 23 0.43
31 7 0.13
ACGTcount: A:0.40, C:0.03, G:0.29, T:0.29
Consensus pattern (29 bp):
GGGGTAAAAAATGGAATTTTGGAAATTTA
Found at i:46867230 original size:29 final size:28
Alignment explanation
Indices: 46867205--46867358 Score: 140
Period size: 29 Copynumber: 5.3 Consensus size: 28
46867195 GTGAAATCGG
46867205 AATTTTGGAAAGTTCGGGTGTAAAATGGT
1 AATTTTGGAAAGTTCGGG-GTAAAATGGT
*
46867234 AATTTTTGGTGAAA--TCGGGGTTAAAAATAG-
1 AA-TTTT-G-GAAAGTTCGGGG-T-AAAATGGT
46867264 AATTTTGGAAAGTTCAGGGGTAAAATGGT
1 AATTTTGGAAAGTTC-GGGGTAAAATGGT
*
46867293 GATTTTGGTGAAA--TCGGGGTTAAAAATGG-
1 AATTTT-G-GAAAGTTCGGGG-T-AAAATGGT
46867322 AATTTTGGAAAGTTCGGGGGTAAAATGGT
1 AATTTTGGAAAGTTC-GGGGTAAAATGGT
46867351 AATTTTGG
1 AATTTTGG
46867359 TGAAATCGAG
Statistics
Matches: 104, Mismatches: 4, Indels: 34
0.73 0.03 0.24
Matches are distributed among these distances:
27 8 0.08
28 19 0.18
29 34 0.33
30 28 0.27
31 11 0.11
32 4 0.04
ACGTcount: A:0.32, C:0.03, G:0.31, T:0.33
Consensus pattern (28 bp):
AATTTTGGAAAGTTCGGGGTAAAATGGT
Found at i:46867230 original size:46 final size:46
Alignment explanation
Indices: 46867158--46867251 Score: 136
Period size: 46 Copynumber: 2.0 Consensus size: 46
46867148 ATTAAAAATA
*
46867158 GAATTTTGGAGAGTTCGGGGGCAAAATGGCT-TTTTTGGTGAAATCG
1 GAATTTTGGAAAGTTCGGGGGCAAAATGG-TATTTTTGGTGAAATCG
* *
46867204 GAATTTTGGAAAGTTCGGGTGTAAAATGGTAATTTTTGGTGAAATCG
1 GAATTTTGGAAAGTTCGGGGGCAAAATGGT-ATTTTTGGTGAAATCG
46867251 G
1 G
46867252 GGTTAAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
45 1 0.02
46 26 0.60
47 16 0.37
ACGTcount: A:0.27, C:0.06, G:0.33, T:0.34
Consensus pattern (46 bp):
GAATTTTGGAAAGTTCGGGGGCAAAATGGTATTTTTGGTGAAATCG
Found at i:46867338 original size:163 final size:163
Alignment explanation
Indices: 46867061--46867366 Score: 490
Period size: 163 Copynumber: 1.9 Consensus size: 163
46867051 AAATTTAGGG
* *
46867061 GTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAA
1 GTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAAATAGAATTTTGGAAAGTTCAGGGGTAAAA
* *
46867126 TGGTAATTTTGATGAAATCGGGATTAAAAATAGAATTTTGGAGAGTTCGGGGGCAAAATGGCT-T
66 TGGTAATTTTGATGAAATCGGGATTAAAAATAGAATTTTGGAAAGTTCGGGGGCAAAATGG-TAA
46867190 TTTTGGTGAAATCGGAATTTTGGAAAGTTCGGGT
130 TTTTGGTGAAATCGGAATTTTGGAAAGTTCGGGT
*
46867224 GTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAAATAGAATTTTGGAAAGTTCAGGGGTAAA
1 GTAAAATGGTAA-TTTTGGTGAAATCGAGGTTAAAAAATAGAATTTTGGAAAGTTCAGGGGTAAA
* * * * *
46867288 ATGGTGATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAA
65 ATGGTAATTTTGATGAAATCGGGATTAAAAATAGAATTTTGGAAAGTTCGGGGGCAAAATGGTAA
46867353 TTTTGGTGAAATCG
130 TTTTGGTGAAATCG
46867367 AGGTTAAAAA
Statistics
Matches: 131, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
162 1 0.01
163 112 0.85
164 18 0.14
ACGTcount: A:0.34, C:0.04, G:0.30, T:0.32
Consensus pattern (163 bp):
GTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAAATAGAATTTTGGAAAGTTCAGGGGTAAAA
TGGTAATTTTGATGAAATCGGGATTAAAAATAGAATTTTGGAAAGTTCGGGGGCAAAATGGTAAT
TTTGGTGAAATCGGAATTTTGGAAAGTTCGGGT
Found at i:46867374 original size:29 final size:29
Alignment explanation
Indices: 46867226--46867387 Score: 158
Period size: 29 Copynumber: 5.5 Consensus size: 29
46867216 GTTCGGGTGT
46867226 AAAATGGTAATTTTTGGTGAAATCGGGGTTA
1 AAAATGG-AA-TTTTGGTGAAATCGGGGTTA
*
46867257 AAAATAGAATTTT-G-GAAAGTTCAGGGG-T-
1 AAAATGGAATTTTGGTGAAA--TC-GGGGTTA
*
46867285 AAAATGGTGATTTTGGTGAAATCGGGGTTA
1 AAAATGG-AATTTTGGTGAAATCGGGGTTA
*
46867315 AAAATGGAATTTT-G-GAAAGTTCGGGGGT-
1 AAAATGGAATTTTGGTGAAA--TCGGGGTTA
*
46867343 AAAATGGTAATTTTGGTGAAATCGAGGTTA
1 AAAATGG-AATTTTGGTGAAATCGGGGTTA
46867373 AAAATGGAATTTTGG
1 AAAATGGAATTTTGG
46867388 AATTTTAGGG
Statistics
Matches: 110, Mismatches: 7, Indels: 30
0.75 0.05 0.20
Matches are distributed among these distances:
27 8 0.07
28 19 0.17
29 47 0.43
30 22 0.20
31 14 0.13
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.32
Consensus pattern (29 bp):
AAAATGGAATTTTGGTGAAATCGGGGTTA
Found at i:46867746 original size:162 final size:161
Alignment explanation
Indices: 46867513--46867985 Score: 723
Period size: 162 Copynumber: 2.9 Consensus size: 161
46867503 GTAAATTTGG
*
46867513 AAAAATTCTTGGGCCAATTTGGTAATTAAATAAAAGTTGATTTAGGAATTAAATTAAAACAAATT
1 AAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGTTGATTTAGG-ATTAAATTAAAACAAATT
* *
46867578 AAAAATAACAGGGACTAGATACATAAATAAGCCAAAAAGTGACACGTGGCAGCCCCTGGTGTAGT
65 AAAAATAACAGGGACTAAATACATAAATAAGCCAAAAAGTGACACGTGGCAGCCCCTGGTGCAGT
*
46867643 CAAACAGTCAAAGGATTAATTTATAAATCTTT
130 CAAACAGTCAAAGGATTAATTTATAAATCTTA
46867675 AAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGTTGATTTAGGATTAAATTAAAACAAATTA
1 AAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGTTGATTTAGGATTAAATTAAAACAAATT-
* *
46867740 AAAAATAACAGGGACTAAATACATAAATCAGCCAAAAAGTGACACGTGGCAGCCGCTGGTGCAGT
65 AAAAATAACAGGGACTAAATACATAAATAAGCCAAAAAGTGACACGTGGCAGCCCCTGGTGCAGT
*
46867805 CAAATAGTCAAAGGATTAATTTATAAATCTTA
130 CAAACAGTCAAAGGATTAATTTATAAATCTTA
* * * *
46867837 AAAAATTCTTAGGCCAATTTTATAATTAAGTAGAAGTTGATTTGAGGATTAAATTAAAACAAATT
1 AAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGTTGATTT-AGGATTAAATTAAAACAAATT
* ** * * * **
46867902 AAAAATAAAAAAGACTAAATGCATAAATAAACCAAAAAGTGACACGTGGCGGCCTTTGGTGCAGT
65 AAAAATAACAGGGACTAAATACATAAATAAGCCAAAAAGTGACACGTGGCAGCCCCTGGTGCAG-
*
46867967 TC-AACAGTGAAAGGATTAA
129 TCAAACAGTCAAAGGATTAA
46867986 ATTAAAAACC
Statistics
Matches: 286, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
161 18 0.06
162 245 0.86
163 23 0.08
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.27
Consensus pattern (161 bp):
AAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGTTGATTTAGGATTAAATTAAAACAAATTA
AAAATAACAGGGACTAAATACATAAATAAGCCAAAAAGTGACACGTGGCAGCCCCTGGTGCAGTC
AAACAGTCAAAGGATTAATTTATAAATCTTA
Found at i:46869685 original size:29 final size:29
Alignment explanation
Indices: 46869653--46869847 Score: 143
Period size: 29 Copynumber: 6.8 Consensus size: 29
46869643 TTATGGATAC
* *
46869653 TCGGGGGCAAAATGGTAATTTTGGTGTAA
1 TCGGGGGTAAAATGGTAATTTTGGTGAAA
* * *
46869682 TCGGGGTTAAAAATGG-AATTTTAG-AAAA
1 TCGGGGGT-AAAATGGTAATTTTGGTGAAA
46869710 TTCGGGGGGTAAAATGGTAATTTTCGGTGAAA
1 -TC-GGGGGTAAAATGGTAATTTT-GGTGAAA
* * *
46869742 TCGAGGTTAAAATGG-AATTTT-G-AAAGA
1 TCGGGGGTAAAATGGTAATTTTGGTGAA-A
*
46869769 TTCGGGGGTAAAATGGTAAATTTGGTGAAA
1 -TCGGGGGTAAAATGGTAATTTTGGTGAAA
* * * *
46869799 TCGGGGTTAAAATGG-GATTTAGG-GAAG
1 TCGGGGGTAAAATGGTAATTTTGGTGAAA
** *
46869826 TTTGGGGTAAAATGATAATTTT
1 TCGGGGGTAAAATGGTAATTTT
46869848 TGAAAGTTTT
Statistics
Matches: 128, Mismatches: 26, Indels: 25
0.72 0.15 0.14
Matches are distributed among these distances:
26 2 0.02
27 16 0.12
28 24 0.19
29 47 0.37
30 31 0.24
31 5 0.04
32 3 0.02
ACGTcount: A:0.33, C:0.04, G:0.31, T:0.31
Consensus pattern (29 bp):
TCGGGGGTAAAATGGTAATTTTGGTGAAA
Found at i:46869697 original size:30 final size:29
Alignment explanation
Indices: 46869661--46869813 Score: 145
Period size: 29 Copynumber: 5.2 Consensus size: 29
46869651 ACTCGGGGGC
*
46869661 AAAATGGTAATTTTGGTGTAATCGGGGTT
1 AAAATGGTAATTTTGGTGAAATCGGGGTT
* * *
46869690 AAAAATGG-AATTTTAG-AAAATTCGGGGGGT
1 -AAAATGGTAATTTTGGTGAAA-TC-GGGGTT
*
46869720 AAAATGGTAATTTTCGGTGAAATCGAGGTT
1 AAAATGGTAATTTT-GGTGAAATCGGGGTT
* *
46869750 AAAATGG-AATTTT-G-AAAGATTCGGGGGT
1 AAAATGGTAATTTTGGTGAA-A-TCGGGGTT
*
46869778 AAAATGGTAAATTTGGTGAAATCGGGGTT
1 AAAATGGTAATTTTGGTGAAATCGGGGTT
46869807 AAAATGG
1 AAAATGG
46869814 GATTTAGGGA
Statistics
Matches: 99, Mismatches: 14, Indels: 21
0.74 0.10 0.16
Matches are distributed among these distances:
26 2 0.02
27 2 0.02
28 15 0.15
29 41 0.41
30 31 0.31
31 5 0.05
32 3 0.03
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.31
Consensus pattern (29 bp):
AAAATGGTAATTTTGGTGAAATCGGGGTT
Found at i:46869754 original size:59 final size:57
Alignment explanation
Indices: 46869653--46869818 Score: 244
Period size: 59 Copynumber: 2.9 Consensus size: 57
46869643 TTATGGATAC
* *
46869653 TCGGGGGCAAAATGGTAATTTTGGTGTAATCGGGGTTAAAAATGGAATTTTAGAAA-AT
1 TCGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTT-AAAATGGAATTTT-GAAAGAT
*
46869711 TCGGGGGGTAAAATGGTAATTTTCGGTGAAATCGAGGTTAAAATGGAATTTTGAAAGAT
1 TC-GGGGGTAAAATGGTAATTTT-GGTGAAATCGGGGTTAAAATGGAATTTTGAAAGAT
* *
46869770 TCGGGGGTAAAATGGTAAATTTGGTGAAATCGGGGTTAAAATGGGATTT
1 TCGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAATGGAATTT
46869819 AGGGAAGTTT
Statistics
Matches: 99, Mismatches: 6, Indels: 7
0.88 0.05 0.06
Matches are distributed among these distances:
57 25 0.25
58 25 0.25
59 36 0.36
60 13 0.13
ACGTcount: A:0.33, C:0.05, G:0.31, T:0.31
Consensus pattern (57 bp):
TCGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAATGGAATTTTGAAAGAT
Found at i:46869883 original size:30 final size:30
Alignment explanation
Indices: 46869826--46870269 Score: 664
Period size: 30 Copynumber: 14.8 Consensus size: 30
46869816 TTTAGGGAAG
*
46869826 TTTGGGGT-AAAATGATAATTTTTG-AAAGT
1 TTTGGGGTCAAAATG-TAATTTTGGAAAAGT
46869855 TTTGGGGTCAAAATGTAATTTTAGG-AAAGT
1 TTTGGGGTCAAAATGTAATTTT-GGAAAAGT
*
46869885 TTTGGGGTCAAAATGTGATTTTGGAAAAGT
1 TTTGGGGTCAAAATGTAATTTTGGAAAAGT
*
46869915 TTTAGGGTCAAAATGTAATTTTAGG-AAAGT
1 TTTGGGGTCAAAATGTAATTTT-GGAAAAGT
* *
46869945 TTTGGGGTTAAAATATAATTTTGGAAAAGT
1 TTTGGGGTCAAAATGTAATTTTGGAAAAGT
* *
46869975 TTTGGGGTTAAAATATAATTTTGGAAAAGT
1 TTTGGGGTCAAAATGTAATTTTGGAAAAGT
46870005 TTTGGGGTCAAAATGTAATTTTGGAAAAGT
1 TTTGGGGTCAAAATGTAATTTTGGAAAAGT
*
46870035 TTTAGGGTCAAAATGTAATTTTGGAAAAGT
1 TTTGGGGTCAAAATGTAATTTTGGAAAAGT
* *
46870065 TTT-GGGTTAAAATATAATTTTGGAAAAGT
1 TTTGGGGTCAAAATGTAATTTTGGAAAAGT
*
46870094 TTTGGGGTTAAAATGTAATTTTGGAAAAGT
1 TTTGGGGTCAAAATGTAATTTTGGAAAAGT
46870124 TTTGGGGTCAAAATGTAATTTTGGAAAAGT
1 TTTGGGGTCAAAATGTAATTTTGGAAAAGT
46870154 TTTGGGGTCAAAATGTAATTTTGGAAAAGT
1 TTTGGGGTCAAAATGTAATTTTGGAAAAGT
* *
46870184 TTTAGGGTCAAAATATAATTTTGGAAAAGT
1 TTTGGGGTCAAAATGTAATTTTGGAAAAGT
* * *
46870214 TTTAGGGTCAAAATATAATTTTAGAAAAGT
1 TTTGGGGTCAAAATGTAATTTTGGAAAAGT
*
46870244 TTTGGGGTCAAAATGTTATTTCTGGA
1 TTTGGGGTCAAAATGTAATTT-TGGA
46870270 CAATTTAGGG
Statistics
Matches: 387, Mismatches: 21, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
29 46 0.12
30 336 0.87
31 5 0.01
ACGTcount: A:0.35, C:0.02, G:0.24, T:0.38
Consensus pattern (30 bp):
TTTGGGGTCAAAATGTAATTTTGGAAAAGT
Found at i:46870147 original size:19 final size:19
Alignment explanation
Indices: 46870123--46870177 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
46870113 TTTGGAAAAG
46870123 TTTTGGGGTCAAAATGTAA
1 TTTTGGGGTCAAAATGTAA
46870142 TTTT--GG--AAAA-G---
1 TTTTGGGGTCAAAATGTAA
46870153 TTTTGGGGTCAAAATGTAA
1 TTTTGGGGTCAAAATGTAA
46870172 TTTTGG
1 TTTTGG
46870178 AAAAGTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 16
0.64 0.00 0.36
Matches are distributed among these distances:
11 4 0.14
13 2 0.07
14 1 0.04
15 8 0.29
16 1 0.04
17 2 0.07
19 10 0.36
ACGTcount: A:0.29, C:0.04, G:0.27, T:0.40
Consensus pattern (19 bp):
TTTTGGGGTCAAAATGTAA
Found at i:46871365 original size:12 final size:12
Alignment explanation
Indices: 46871345--46871374 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
46871335 GTTATTATTG
46871345 TAATATATTTAT
1 TAATATATTTAT
*
46871357 TAATGTATTTAT
1 TAATATATTTAT
46871369 TAATAT
1 TAATAT
46871375 CATTCACCGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (12 bp):
TAATATATTTAT
Done.