Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold69
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: 2104606
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.31
Warning! 151874 characters in sequence are not A, C, G, or T
File 6 of 13
Found at i:920326 original size:33 final size:33
Alignment explanation
Indices: 920284--920353 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 33
920274 TTCTATCACT
*
920284 ATTTGTATCGATCCATG-GCACATTGTATCGATAC
1 ATTTGTATCGATACATGAG-A-ATTGTATCGATAC
920318 ATTT-TATCGATACATGAAGAATTGTATCGATAC
1 ATTTGTATCGATACATG-AGAATTGTATCGATAC
920351 ATT
1 ATT
920354 GCTTCAAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
33 27 0.82
34 5 0.15
35 1 0.03
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (33 bp):
ATTTGTATCGATACATGAGAATTGTATCGATAC
Found at i:923276 original size:20 final size:19
Alignment explanation
Indices: 923213--923290 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 19
923203 TTTTACCCAG
923213 ATGTATCGATACAAGTTTTCA
1 ATGTATCGATAC-A-TTTTCA
* * *
923234 ATGTAACGATACATGTATGA
1 ATGTATCGATACAT-TTTCA
*
923254 ATGTATCGATACATTCTTTA
1 ATGTATCGATACATT-TTCA
923274 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
923291 ATCTTTTTAC
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.08
20 34 0.69
21 11 0.22
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (19 bp):
ATGTATCGATACATTTTCA
Found at i:923323 original size:91 final size:91
Alignment explanation
Indices: 923163--923338 Score: 275
Period size: 91 Copynumber: 1.9 Consensus size: 91
923153 TTTTACCGAG
* *
923163 ATGTATCAATACATTTTTCAATGTATCGATACATTTTGTCTTTTACCCAGATGTATCGATACAAG
1 ATGTATCAATACATTTTTCAATGTATCGATACATTTTATCTTTTACCCAGATATATCGATACAAG
923228 TTTTCAATGTAACGATACATGTATGA
66 TTTTCAATGTAACGATACATGTATGA
*
923254 ATGTATCGATACATTCTTT-AATGTATCGATACATTTTATCTTTTTACCCAGATATATCGATAC-
1 ATGTATCAATACATT-TTTCAATGTATCGATACATTTTATC-TTTTACCCAGATATATCGATACA
* *
923317 ATTTTTCAATGTATCGATACAT
64 AGTTTTCAATGTAACGATACAT
923339 CTAGTTAAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
91 54 0.69
92 24 0.31
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.41
Consensus pattern (91 bp):
ATGTATCAATACATTTTTCAATGTATCGATACATTTTATCTTTTACCCAGATATATCGATACAAG
TTTTCAATGTAACGATACATGTATGA
Found at i:927732 original size:22 final size:19
Alignment explanation
Indices: 927690--927732 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 19
927680 AAAAATTTTT
*
927690 AAAATATATTTTTATATTA
1 AAAATATATTTTTATAATA
927709 AAAATTATATATTTTATAAATA
1 AAAA-TATAT-TTTTAT-AATA
927731 AA
1 AA
927733 TTTAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 5 0.25
21 6 0.30
22 5 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATATATTTTTATAATA
Found at i:927733 original size:20 final size:20
Alignment explanation
Indices: 927689--927734 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
927679 TAAAAATTTT
*
927689 TAAAATATATTTTTATATTAA
1 TAAATTATATTTTTATA-TAA
927710 -AAATTATATATTTTATA-AA
1 TAAATTATAT-TTTTATATAA
927729 TAAATT
1 TAAATT
927735 TAAAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 2 0.09
20 13 0.59
21 7 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAAATTATATTTTTATATAA
Found at i:927938 original size:32 final size:34
Alignment explanation
Indices: 927893--927963 Score: 85
Period size: 32 Copynumber: 2.1 Consensus size: 34
927883 GAATAAAAAA
* *
927893 ATTATTATTTTTGATATTA-TTAAA-AATTAAAT
1 ATTATTATTTTTGAAAGTACTTAAATAATTAAAT
*
927925 ATTATT-TTATTTGAAAGTACTTAAATAATTATAT
1 ATTATTATT-TTTGAAAGTACTTAAATAATTAAAT
927959 ATTAT
1 ATTAT
927964 AATAATTACA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 2 0.06
32 14 0.42
33 5 0.15
34 12 0.36
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (34 bp):
ATTATTATTTTTGAAAGTACTTAAATAATTAAAT
Found at i:928231 original size:4 final size:4
Alignment explanation
Indices: 928222--928248 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
928212 TTTTTCTTTG
928222 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
928249 TGATATTGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:929072 original size:15 final size:15
Alignment explanation
Indices: 929052--929113 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 15
929042 GTTAGGTAAT
929052 TTGGGCAATTCTGGC
1 TTGGGCAATTCTGGC
* *
929067 TTGGGCAAGTT-AGGTAAT
1 TTGGGCAA-TTCTGG---C
929085 TTGGGCAATTCTGGC
1 TTGGGCAATTCTGGC
*
929100 TTGGGCAACTCTGG
1 TTGGGCAATTCTGG
929114 AACTTTGGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
15 23 0.62
16 2 0.05
17 2 0.05
18 10 0.27
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (15 bp):
TTGGGCAATTCTGGC
Found at i:929090 original size:18 final size:18
Alignment explanation
Indices: 929037--929092 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
929027 TTCATGCTTT
929037 GGCAAGTTAGGTAATTTG
1 GGCAAGTTAGGTAATTTG
* *
929055 GGCAA-TTCTGG---CTTG
1 GGCAAGTT-AGGTAATTTG
929070 GGCAAGTTAGGTAATTTG
1 GGCAAGTTAGGTAATTTG
929088 GGCAA
1 GGCAA
929093 TTCTGGCTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
15 10 0.34
16 2 0.07
17 2 0.07
18 15 0.52
ACGTcount: A:0.25, C:0.11, G:0.34, T:0.30
Consensus pattern (18 bp):
GGCAAGTTAGGTAATTTG
Found at i:929121 original size:33 final size:33
Alignment explanation
Indices: 929027--929317 Score: 167
Period size: 33 Copynumber: 8.8 Consensus size: 33
929017 CCTTTGGTGC
* * *
929027 TTCATGCTTTGGCAAGTTAGGTAA-TTTGGGCAA
1 TTCAGGCTTTGGCAACTCAGG-AACTTTGGGCAA
* * * *
929060 TTCTGGCTTGGGCAAGTTAGGTAA-TTTGGGCAA
1 TTCAGGCTTTGGCAACTCAGG-AACTTTGGGCAA
* * * *
929093 TTCTGGCTTGGGCAACTCTGGAACTTTGGGTAA
1 TTCAGGCTTTGGCAACTCAGGAACTTTGGGCAA
* * * * * *
929126 TTCAAGCTTTGGTAACTCCGGAATTTTGGGTAC
1 TTCAGGCTTTGGCAACTCAGGAACTTTGGGCAA
* * * * ** * *
929159 TTGAGGTTTTGGTAAGTCAACCAA-TTTCGGTAA
1 TTCAGGCTTTGGCAACTC-AGGAACTTTGGGCAA
* * * *
929192 TTCAGGCTTTGGTAACTCAGGAACATTAGGTAA
1 TTCAGGCTTTGGCAACTCAGGAACTTTGGGCAA
* *
929225 TTCAGG-TTTCGGCAACTCAGGAGCTTTTGGCAA
1 TTCAGGCTTT-GGCAACTCAGGAACTTTGGGCAA
* * * * *
929258 TTCTGGCTTGGGCACCTCAGTAACTTTAGGCAA
1 TTCAGGCTTTGGCAACTCAGGAACTTTGGGCAA
* * *
929291 TTCTGGCTTTGGTAACTCTGGAACTTT
1 TTCAGGCTTTGGCAACTCAGGAACTTT
929318 AACTTCTTCA
Statistics
Matches: 207, Mismatches: 46, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
32 8 0.04
33 195 0.94
34 4 0.02
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.34
Consensus pattern (33 bp):
TTCAGGCTTTGGCAACTCAGGAACTTTGGGCAA
Found at i:939881 original size:13 final size:14
Alignment explanation
Indices: 939851--939883 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
939841 GGTTTATTTG
939851 TTTTGTAAAAAATAA
1 TTTT-TAAAAAATAA
939866 TTTTTAAAAAAT-A
1 TTTTTAAAAAATAA
939879 TTTTT
1 TTTTT
939884 CATATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 8 0.44
15 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (14 bp):
TTTTTAAAAAATAA
Found at i:940238 original size:20 final size:18
Alignment explanation
Indices: 940213--940258 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 18
940203 ATATGAATAT
940213 TTTAATAATGTAATATTATA
1 TTTAATAAT-TAA-ATTATA
940233 TTTAATAA-TAAATTATA
1 TTTAATAATTAAATTATA
940250 -TTAATAATT
1 TTTAATAATT
940259 TATTATTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 7 0.28
17 7 0.28
18 3 0.12
20 8 0.32
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TTTAATAATTAAATTATA
Found at i:940255 original size:16 final size:16
Alignment explanation
Indices: 940227--940287 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
940217 ATAATGTAAT
940227 ATTATATTTAATAATAA
1 ATTATA-TTAATAATAA
**
940244 ATTATATTAATAATTT
1 ATTATATTAATAATAA
* * *
940260 ATTATTTTCATAAAAA
1 ATTATATTAATAATAA
940276 ATTAT-TTAATAA
1 ATTATATTAATAA
940288 AATAATAATA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
15 6 0.17
16 24 0.67
17 6 0.17
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTATATTAATAATAA
Found at i:940403 original size:28 final size:28
Alignment explanation
Indices: 940372--940429 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
940362 ATAATTTCAT
* *
940372 ATAA-ATTATAATTTATAAACATTTAATA
1 ATAATATTATAATTTA-AAAAAATTAATA
* *
940400 ATAATTTTATTATTTAAAAAAATTAATA
1 ATAATATTATAATTTAAAAAAATTAATA
940428 AT
1 AT
940430 TTAAAAGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
28 16 0.64
29 9 0.36
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (28 bp):
ATAATATTATAATTTAAAAAAATTAATA
Found at i:940625 original size:21 final size:22
Alignment explanation
Indices: 940586--940626 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
940576 AATATTATTT
*
940586 TTAAAATATTAAAATTTTAATA
1 TTAAAATATTAAAAGTTTAATA
*
940608 TTAAAA-ATTAATAGTTTAA
1 TTAAAATATTAAAAGTTTAA
940627 AGATAGTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TTAAAATATTAAAAGTTTAATA
Found at i:941068 original size:20 final size:19
Alignment explanation
Indices: 941043--941115 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
941033 ATCGATAAAA
*
941043 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
*
941063 TGTATCGATATATGTTCAT
1 TGTATCGATACATGTTCAT
**
941082 TGTATCGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
941102 TGTATCGATACATG
1 TGTATCGATACATG
941116 AAACTGGCAG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 16 0.35
20 29 0.63
21 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:941179 original size:13 final size:13
Alignment explanation
Indices: 941161--941192 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
941151 GATACATGGC
941161 ACATTGTATCAAT
1 ACATTGTATCAAT
*
941174 ACATTGTATCGAT
1 ACATTGTATCAAT
941187 ACATTG
1 ACATTG
941193 CTTCAAACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (13 bp):
ACATTGTATCAAT
Found at i:947470 original size:21 final size:22
Alignment explanation
Indices: 947445--947487 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
947435 ATCAAATCTT
* *
947445 CTTTAAATTTCTT-ATTTTTCA
1 CTTTAAAATACTTCATTTTTCA
947466 CTTTAAAATACTTCATTTTTCA
1 CTTTAAAATACTTCATTTTTCA
947488 TCAAAATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.28, C:0.16, G:0.00, T:0.56
Consensus pattern (22 bp):
CTTTAAAATACTTCATTTTTCA
Found at i:950242 original size:18 final size:18
Alignment explanation
Indices: 950206--950272 Score: 66
Period size: 18 Copynumber: 3.7 Consensus size: 18
950196 TGATACTAAA
950206 TAATATT-AT-TAAGTATT
1 TAATATTAATATAA-TATT
950223 TAATATTAATATAATATT
1 TAATATTAATATAATATT
* *
950241 TAATATAAATATTATGATT
1 TAATATTAATATAAT-ATT
*
950260 AAAATATTAATAT
1 -TAATATTAATAT
950273 TTTAAAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
17 7 0.17
18 19 0.45
19 6 0.14
20 10 0.24
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (18 bp):
TAATATTAATATAATATT
Found at i:950298 original size:25 final size:23
Alignment explanation
Indices: 950266--950323 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 23
950256 GATTAAAATA
*
950266 TTAATATTTTAAAAATAAATACTT
1 TTAATATTTTAAAAATAAATA-AT
* *
950290 TATAATATTTTAATAATTAATAAT
1 T-TAATATTTTAAAAATAAATAAT
950314 TTAATATTTT
1 TTAATATTTT
950324 CATCAATAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.30
24 3 0.10
25 18 0.60
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TTAATATTTTAAAAATAAATAAT
Found at i:950504 original size:23 final size:22
Alignment explanation
Indices: 950462--950504 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
950452 TGTTTAATTA
*
950462 AAATTTTTCATTAATTTTTATT
1 AAATTTTTCATTAATCTTTATT
950484 AAATTTTATCATTCAA-CTTTA
1 AAATTTT-TCATT-AATCTTTA
950505 ATTTTAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 7 0.39
23 9 0.50
24 2 0.11
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (22 bp):
AAATTTTTCATTAATCTTTATT
Found at i:950564 original size:13 final size:14
Alignment explanation
Indices: 950546--950578 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
950536 TATTTAATAA
950546 AAATAATAT-TTTT
1 AAATAATATATTTT
950559 AAATAATATATTTT
1 AAATAATATATTTT
950573 -AATAAT
1 AAATAAT
950579 TAAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATAATATATTTT
Found at i:950595 original size:21 final size:21
Alignment explanation
Indices: 950571--950612 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
950561 ATAATATATT
950571 TTAAT-AATTAAAAATAATAAA
1 TTAATCAA-TAAAAATAATAAA
*
950592 TTAATCAATAAAAATATTAAA
1 TTAATCAATAAAAATAATAAA
950613 AATTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
TTAATCAATAAAAATAATAAA
Found at i:954416 original size:35 final size:36
Alignment explanation
Indices: 954348--954417 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 36
954338 ATCTATTTAT
* *
954348 AATAAAAAATTTTAATTTAAATTTTATTATATAATC
1 AATAAAAAATTTTAATTTAAATGTCATTATATAATC
* *
954384 AATAAAAAATTTT-ATTTTAATGTCATTTTATAAT
1 AATAAAAAATTTTAATTTAAATGTCATTATATAAT
954418 ATAGCAAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 17 0.57
36 13 0.43
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (36 bp):
AATAAAAAATTTTAATTTAAATGTCATTATATAATC
Found at i:954928 original size:18 final size:18
Alignment explanation
Indices: 954907--954969 Score: 81
Period size: 18 Copynumber: 3.3 Consensus size: 18
954897 TTTGGATATT
954907 ATTTTTTAAAAAAAATTA
1 ATTTTTTAAAAAAAATTA
*
954925 ATTTTTTAAAAAAGATTAA
1 ATTTTTTAAAAAAAATT-A
*
954944 TATTTCTTTTAAAAAAATTA
1 -ATTT-TTTAAAAAAAATTA
954964 ATTTTT
1 ATTTTT
954970 CTAGATATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
18 18 0.46
19 5 0.13
20 5 0.13
21 11 0.28
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
ATTTTTTAAAAAAAATTA
Found at i:954956 original size:22 final size:21
Alignment explanation
Indices: 954906--954971 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
954896 TTTTGGATAT
*
954906 TATTT-TTTAAAAAAAATT-A
1 TATTTCTTTTAAAAAAATTAA
954925 -A-TT-TTTTAAAAAAGATTAA
1 TATTTCTTTTAAAAAA-ATTAA
954944 TATTTCTTTTAAAAAAATTAA
1 TATTTCTTTTAAAAAAATTAA
*
954965 TTTTTCT
1 TATTTCT
954972 AGATATAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 11 0.28
18 4 0.10
19 1 0.03
20 1 0.03
21 13 0.32
22 10 0.25
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (21 bp):
TATTTCTTTTAAAAAAATTAA
Found at i:955317 original size:22 final size:22
Alignment explanation
Indices: 955302--955342 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
955292 ATAAATATAT
955302 TTATTAAAATATATAAAATTAA
1 TTATTAAAATATATAAAATTAA
*
955324 TTATTAATATAT-TAAAATT
1 TTATTAAAATATATAAAATT
955343 TATATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TTATTAAAATATATAAAATTAA
Found at i:956411 original size:32 final size:27
Alignment explanation
Indices: 956334--956413 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 27
956324 ATTGAAACTT
956334 TTTAATGATTATTAAATTTATGAATATA
1 TTTAAT-ATTATTAAATTTATGAATATA
*
956362 TTTAATATTTATCAAATTTATGAATAAATTTA
1 TTTAATA-TTATTAAATTTATGAAT--A--TA
956394 TTTAATACTTATTAAATTTA
1 TTTAATA-TTATTAAATTTA
956414 CGAGTAATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
27 1 0.02
28 22 0.50
30 1 0.02
32 20 0.45
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (27 bp):
TTTAATATTATTAAATTTATGAATATA
Found at i:956905 original size:14 final size:13
Alignment explanation
Indices: 956886--956915 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
956876 TGTAAGTGTC
956886 TTTTTTATTTGATT
1 TTTTTTATTT-ATT
956900 TTTTTTATTTATT
1 TTTTTTATTTATT
956913 TTT
1 TTT
956916 CTTAGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (13 bp):
TTTTTTATTTATT
Found at i:960082 original size:345 final size:345
Alignment explanation
Indices: 959451--960142 Score: 1118
Period size: 345 Copynumber: 2.0 Consensus size: 345
959441 TGTTCACGGA
* * *
959451 TTAAGGATTCCAATTAAGCAGGATGATATCACCAAGAGGCCTTCCGTGCCTGTAAAAATGCCCTA
1 TTAAGGATTCCAATAAAGCAGGATGATACCACCAAGAGGCCTTCCATGCCTGTAAAAATGCCCTA
* * * *
959516 TCAAATGCCAATGGATAGTGGGGGAAAACAATCAACCATAGCAAAATTGAGACCTTCAATACCGT
66 TCAAATCCCAATGGATAGTAGGGCAAAACAATCAACCATAGCAAAATTGAGACCTTCAATACCAT
* * *
959581 CTCAGTCAGCTGGATCTAAGGCTCTTAGTCATAATAAAAGCCTAGCACATGATATTCCACCGGAA
131 CTCAGTCAGCTGGATCCAAGGCTCTTAGTCATAAGAAAAGCCTAGCACATGATATTCCACCAGAA
** * *
959646 CAGAGCAAAGGGGTTATGGGGATTTTGCAGAATAAGATTCTACTGCATCAGCAAGAACCTGATGA
196 CAGAAAAAAGGGGGTATGGGGATTTTGCAGAATAAGATTCTACTGCATCAGCAAGAACCTGAGGA
959711 GTCTTCTACTGCTGGCAGTGGCAGCAGTGACAGTGAGGCTTATTCTTTGACAAGTCAAGACAGTT
261 GTCTTCTACTGCTGGCAGTGGCAGCAGTGACAGTGAGGCTTATTCTTTGACAAGTCAAGACAGTT
959776 CAACTTCAACAATCC-GTCGG
326 CAACTTCAAC-ATCCAGTCGG
*
959796 TTAAGGATTCCAATAAAGCAGGATGATACCACCAGGAGGCC-TCTCATGCCTGTAAAAATGCCCT
1 TTAAGGATTCCAATAAAGCAGGATGATACCACCAAGAGGCCTTC-CATGCCTGTAAAAATGCCCT
* *
959860 ATCCAATCCCAGTGGATAGTAGGGCAAAACAATCAACCATAGCAAAATTGAGACCTTCAATACCA
65 ATCAAATCCCAATGGATAGTAGGGCAAAACAATCAACCATAGCAAAATTGAGACCTTCAATACCA
* * *
959925 TCTCAGTCAGCTGGATCCAAGGCTTTTAGTTATAAGAAAAGCCTAGCACATGATATTCTACCAGA
130 TCTCAGTCAGCTGGATCCAAGGCTCTTAGTCATAAGAAAAGCCTAGCACATGATATTCCACCAGA
* *
959990 ACAGAAAAAAGGGGGTATGGGGATTTTGCGGAATAAGATTCTACTGCGTCAGCAAGAACCTGAGG
195 ACAGAAAAAAGGGGGTATGGGGATTTTGCAGAATAAGATTCTACTGCATCAGCAAGAACCTGAGG
* *
960055 AGTCTTCTACTGCTGGCAGTGGCAGCAGTGACAGTGAGGTTTATTCTTTGACAAGTCAGGACAGT
260 AGTCTTCTACTGCTGGCAGTGGCAGCAGTGACAGTGAGGCTTATTCTTTGACAAGTCAAGACAGT
* *
960120 TCATCTTTAACATCCAGTCGG
325 TCAACTTCAACATCCAGTCGG
960141 TT
1 TT
960143 TGATCAGGGA
Statistics
Matches: 319, Mismatches: 26, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
344 6 0.02
345 313 0.98
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.24
Consensus pattern (345 bp):
TTAAGGATTCCAATAAAGCAGGATGATACCACCAAGAGGCCTTCCATGCCTGTAAAAATGCCCTA
TCAAATCCCAATGGATAGTAGGGCAAAACAATCAACCATAGCAAAATTGAGACCTTCAATACCAT
CTCAGTCAGCTGGATCCAAGGCTCTTAGTCATAAGAAAAGCCTAGCACATGATATTCCACCAGAA
CAGAAAAAAGGGGGTATGGGGATTTTGCAGAATAAGATTCTACTGCATCAGCAAGAACCTGAGGA
GTCTTCTACTGCTGGCAGTGGCAGCAGTGACAGTGAGGCTTATTCTTTGACAAGTCAAGACAGTT
CAACTTCAACATCCAGTCGG
Found at i:961923 original size:2 final size:2
Alignment explanation
Indices: 961916--961941 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
961906 TCATACATAC
961916 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
961942 GTGTGTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:963739 original size:2 final size:2
Alignment explanation
Indices: 963732--963767 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
963722 AATCAACAAA
963732 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
963768 TATTTTCAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:966089 original size:83 final size:83
Alignment explanation
Indices: 965950--966116 Score: 282
Period size: 83 Copynumber: 2.0 Consensus size: 83
965940 CCTGATCATA
*
965950 TTGAGATATAGTACTTCAGCATTAAATACTTTCTTATTTGGTTCCTTAGGATGAAATAGGTCATT
1 TTGAGATATAGTACTTCAGCATTAAATACTTTCTTATTTGGTTCCTTAAGATGAAATAGGTCATT
966015 TTTTGAGTTCCACTAACC
66 TTTTGAGTTCCACTAACC
* *
966033 TTGAGATGTAGTACTTCAGCATTAAGTACTTTCTTATTTGGTT-CTTCAAGATGAAATAGGTCAT
1 TTGAGATATAGTACTTCAGCATTAAATACTTTCTTATTTGGTTCCTT-AAGATGAAATAGGTCAT
*
966097 TTTTTTAGTTCCACTAACC
65 TTTTTGAGTTCCACTAACC
966116 T
1 T
966117 CAATACCATG
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
82 3 0.04
83 76 0.96
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (83 bp):
TTGAGATATAGTACTTCAGCATTAAATACTTTCTTATTTGGTTCCTTAAGATGAAATAGGTCATT
TTTTGAGTTCCACTAACC
Found at i:967904 original size:154 final size:154
Alignment explanation
Indices: 967583--968230 Score: 643
Period size: 154 Copynumber: 4.2 Consensus size: 154
967573 AGGATATGAG
* * * *
967583 AATGATATAAAAGGAGGAACCTATCCTAAAAGCATACCTTTAGCCTAAAAGCGACCAGATGATTA
1 AATGATATAAAATGATGAACCTATCCTAAAAGCATACCTTTAGCATAAAAGTGACC-GATGATTA
* * * *
967648 CCTAGGATTCGGTTCAAGGAAAAATTACTAAAATGCCAC-T-AGGATATACATTTGATGTGAAAG
65 CCTAGGACTCGGTTCAA-GAAAAATTACCAAAATGCCACTTGAGG-TATACCTTCGATGTGAAAG
** * *
967711 TATCTTAGTAATACTAAAAGGCACGAA
128 TATCCCAGTAACACTAAAAGACACGAA
** *
967738 AATGATATAAAATGATGAACCTATTTTAAAAGCATACCTTTAGCCTAAAAGTGACTCGAT-ACTT
1 AATGATATAAAATGATGAACCTATCCTAAAAGCATACCTTTAGCATAAAAGTGAC-CGATGA-TT
* * * * ** *
967802 ATCTAGGACTTGGTTTAAGAAAAATTACCAAAATACC-CTTGAGGTATATCCTT-GACATAAAAG
64 ACCTAGGACTCGGTTCAAGAAAAATTACCAAAATGCCACTTGAGGTATA-CCTTCGATGTGAAAG
* *
967865 TATCCCAGTAACATTAAAAGACACAAA
128 TATCCCAGTAACACTAAAAGACACGAA
* * ** * *
967892 AATGATTTAAAATGATGAACCTATCCTAAATGGGTACATTTGGCATAAAAGTGACCCGATGATTA
1 AATGATATAAAATGATGAACCTATCCTAAAAGCATACCTTTAGCATAAAAGTGA-CCGATGATTA
* * *
967957 CTTA-GACTCGGTTCAAAAGAAAATTACCAAAATG-C-CTTTAGGTATACCTTCGATGTGAAAGT
65 CCTAGGACTCGGTTCAAGA-AAAATTACCAAAATGCCACTTGAGGTATACCTTCGATGTGAAAGT
*** * * *
968019 ATCTTGGTAACCCCTAAAAGGCATGAA
129 ATCCCAGTAA-CACTAAAAGACACGAA
* * * * * *
968046 AATGATATAAAAAGATGAACCTACCCTAAAAGGATATCATTAGCATAAAAGTGACCTAGTGATTA
1 AATGATATAAAATGATGAACCTATCCTAAAAGCATACCTTTAGCATAAAAGTGACCGA-TGATTA
* * *
968111 CCTAGGACTCGGTTCAAGAAAAAATTATCAAAATGCCTCTTG-GGTATACCTTCGATGTGAACGT
65 CCTAGGACTCGGTTCAAG-AAAAATTACCAAAATGCCACTTGAGGTATACCTTCGATGTGAAAGT
968175 ATCCC-GTTAAC-CTTAAAAGACACGAA
129 ATCCCAG-TAACAC-TAAAAGACACGAA
* * *
968201 GATAATATAAAATGATGAACCTAACCTAAA
1 AATGATATAAAATGATGAACCTATCCTAAA
968231 TGGGTAATTT
Statistics
Matches: 405, Mismatches: 71, Indels: 34
0.79 0.14 0.07
Matches are distributed among these distances:
152 4 0.01
153 41 0.10
154 185 0.46
155 142 0.35
156 30 0.07
157 3 0.01
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (154 bp):
AATGATATAAAATGATGAACCTATCCTAAAAGCATACCTTTAGCATAAAAGTGACCGATGATTAC
CTAGGACTCGGTTCAAGAAAAATTACCAAAATGCCACTTGAGGTATACCTTCGATGTGAAAGTAT
CCCAGTAACACTAAAAGACACGAA
Found at i:968627 original size:19 final size:19
Alignment explanation
Indices: 968603--968658 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
968593 ATATCGATAC
**
968603 ATTGTATCGATACATGTTA
1 ATTGTATCGATACATGACA
968622 ATTGTATCGATACATGGACA
1 ATTGTATCGATACAT-GACA
968642 ATTGTATCGATACATGA
1 ATTGTATCGATACATGA
968659 GATTGGCAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
ATTGTATCGATACATGACA
Found at i:968646 original size:20 final size:20
Alignment explanation
Indices: 968603--968657 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
968593 ATATCGATAC
**
968603 ATTGTATCGATACAT-GTTA
1 ATTGTATCGATACATGGACA
968622 ATTGTATCGATACATGGACA
1 ATTGTATCGATACATGGACA
968642 ATTGTATCGATACATG
1 ATTGTATCGATACATG
968658 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:968712 original size:20 final size:20
Alignment explanation
Indices: 968687--968739 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
968677 TTCCACTGTT
*
968687 TGTATCGATACATGGT-ACAA
1 TGTATCGATACATGATGA-AA
*
968707 TGTATCGATACATGATGAAT
1 TGTATCGATACATGATGAAA
968727 TGTATCGATACAT
1 TGTATCGATACAT
968740 AGCTTGTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATGATGAAA
Found at i:975100 original size:20 final size:22
Alignment explanation
Indices: 975056--975102 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
975046 AATTTTCCAC
975056 AAAT-TTTCACTTTTTCACTTCA
1 AAATCTTTCACTTTTTCAC-TCA
975078 AAATCTTTCA-TTTTTCA-TCA
1 AAATCTTTCACTTTTTCACTCA
975098 AAATC
1 AAATC
975103 ATCAACAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.33
22 11 0.46
23 5 0.21
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATCTTTCACTTTTTCACTCA
Found at i:977416 original size:13 final size:13
Alignment explanation
Indices: 977398--977424 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
977388 ACATTATGCT
977398 TTGTATCGATACA
1 TTGTATCGATACA
977411 TTGTATCGATACA
1 TTGTATCGATACA
977424 T
1 T
977425 GTTAATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:977434 original size:19 final size:19
Alignment explanation
Indices: 977410--977465 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
977400 GTATCGATAC
**
977410 ATTGTATCGATACATGTTA
1 ATTGTATCGATACATGACA
*
977429 ATTGTATTGATACATGGACA
1 ATTGTATCGATACAT-GACA
977449 ATTGTATCGATACATGA
1 ATTGTATCGATACATGA
977466 GATTGAAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.38
Consensus pattern (19 bp):
ATTGTATCGATACATGACA
Found at i:977453 original size:20 final size:20
Alignment explanation
Indices: 977410--977464 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
977400 GTATCGATAC
**
977410 ATTGTATCGATACAT-GTTA
1 ATTGTATCGATACATGGACA
*
977429 ATTGTATTGATACATGGACA
1 ATTGTATCGATACATGGACA
977449 ATTGTATCGATACATG
1 ATTGTATCGATACATG
977465 AGATTGAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:981836 original size:41 final size:41
Alignment explanation
Indices: 981778--981860 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
981768 ACAAGTAAAT
* *
981778 AAAGATTTAAGGATTGACTAAGATAAAACCAATAAGTCAAC
1 AAAGATTAAAGGATTGACTAAGAAAAAACCAATAAGTCAAC
** *
981819 AAAGAGTTAAAGG-TTGACTGGGAAAAAACCTATAAGTCAAC
1 AAAGA-TTAAAGGATTGACTAAGAAAAAACCAATAAGTCAAC
981860 A
1 A
981861 GCTGGGAAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
41 30 0.83
42 6 0.17
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.20
Consensus pattern (41 bp):
AAAGATTAAAGGATTGACTAAGAAAAAACCAATAAGTCAAC
Found at i:981940 original size:79 final size:79
Alignment explanation
Indices: 981844--982016 Score: 199
Period size: 79 Copynumber: 2.2 Consensus size: 79
981834 GACTGGGAAA
* * * * * * *
981844 AAACCTATAAGTCAACAGCTGGGAAAGGTTGATCGAGATTAAAACAA-TAAGTCAATGGACAAGA
1 AAACTTATAAGTTAACAGATAGGAAAGATTGATCGAGATGAAAACAACT-AGTCAATGAACAAGA
981908 AGA-GTTAACCAGATG
65 A-ATGTTAACCAGATG
* **
981923 AAACTTATAAGTTAACAGATAGGAAAGATTGATCGAGATGAAACCAACTAGTCAATGAATGAGAA
1 AAACTTATAAGTTAACAGATAGGAAAGATTGATCGAGATGAAAACAACTAGTCAATGAACAAGAA
*
981988 ATGTTGACCAGATG
66 ATGTTAACCAGATG
982002 AAA-TTAATAAGTTAA
1 AAACTT-ATAAGTTAA
982017 TAGGTAAGAA
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
78 3 0.04
79 76 0.95
80 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.22
Consensus pattern (79 bp):
AAACTTATAAGTTAACAGATAGGAAAGATTGATCGAGATGAAAACAACTAGTCAATGAACAAGAA
ATGTTAACCAGATG
Found at i:982094 original size:160 final size:159
Alignment explanation
Indices: 981911--982294 Score: 382
Period size: 160 Copynumber: 2.4 Consensus size: 159
981901 GACAAGAAGA
* * * * *
981911 GTTAACCA-GATGAAACTTATAAGTTAACAGATAGGAAA-GATTGA-TCGAGATGAAACCAACTA
1 GTTAACCAGGATAAAATTTATAAGTTAACAGAT-GAAAAGGATTGACT-GAGACGAAACCAACAA
* ** * * * *
981973 GTCAATGAATGAGAAATGTTGACCAGATGAAATTAATAAGTTAATAGGTAAGAAAGGTTAGCTAG
64 GTCAATGAATGAGAAATGTTGACCAGATGAAATCAATAAGCCAACAAGTAAAAAAGGTT-GATAG
*
982038 G-ACAAAACCTATATGTTAAAAGATGGAAAAGG
128 GAACAAAACCTATAGGTTAAAAGATGG-AAAGG
* * * * *
982070 GTTAACCAGGATAAAATTTATAAGTTAATAGGTGAAAAGGGTTGACTGTGACGAAGCCAACAAGT
1 GTTAACCAGGATAAAATTTATAAGTTAACAGATGAAAAGGATTGACTGAGACGAAACCAACAAGT
* * *** * *
982135 CAATGCATGGGGTGTGTTGACCAGATGAAATCGATAAGCCAACAAGTAAAAAAGGTTGATCGGAA
66 CAATGAATGAGAAATGTTGACCAGATGAAATCAATAAGCCAACAAGTAAAAAAGGTTGATAGGAA
*
982200 CAAAACCTATAGGTTAACAGATGGAAAGG
131 CAAAACCTATAGGTTAAAAGATGGAAAGG
** * * * * *
982229 GTTAACCAGGATAAAATCGATAAGTTAATAGGTGAAAAAGGGTTGATTG-GTACGAAACCTACAA
1 GTTAACCAGGATAAAATTTATAAGTTAACAGATG-AAAAGGATTGACTGAG-ACGAAACCAACAA
982293 GT
64 GT
982295 TAATAGATGG
Statistics
Matches: 188, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
159 54 0.29
160 133 0.71
161 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.23
Consensus pattern (159 bp):
GTTAACCAGGATAAAATTTATAAGTTAACAGATGAAAAGGATTGACTGAGACGAAACCAACAAGT
CAATGAATGAGAAATGTTGACCAGATGAAATCAATAAGCCAACAAGTAAAAAAGGTTGATAGGAA
CAAAACCTATAGGTTAAAAGATGGAAAGG
Found at i:982107 original size:40 final size:40
Alignment explanation
Indices: 981994--982112 Score: 107
Period size: 41 Copynumber: 3.0 Consensus size: 40
981984 AGAAATGTTG
* * *
981994 ACCA-GATGAAATTAATAAGTTAATAGGT-AAGAAAGGTTA
1 ACCAGGATAAAATTTATAAGTTAATAGGTGAA-AAGGGTTA
* * * ** * * *
982033 GCTAGGACAAAACCTATATGTTAAAAGATGGAAAAGGGTTA
1 ACCAGGATAAAATTTATAAGTTAATAGGT-GAAAAGGGTTA
982074 ACCAGGATAAAATTTATAAGTTAATAGGTGAAAAGGGTT
1 ACCAGGATAAAATTTATAAGTTAATAGGTGAAAAGGGTT
982113 GACTGTGACG
Statistics
Matches: 58, Mismatches: 19, Indels: 5
0.71 0.23 0.06
Matches are distributed among these distances:
39 2 0.03
40 26 0.45
41 28 0.48
42 2 0.03
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (40 bp):
ACCAGGATAAAATTTATAAGTTAATAGGTGAAAAGGGTTA
Found at i:982310 original size:41 final size:39
Alignment explanation
Indices: 982250--982357 Score: 101
Period size: 39 Copynumber: 2.7 Consensus size: 39
982240 TAAAATCGAT
* ** *
982250 AAGTTAATAGGTGAAAAAGGGTTGATTGGTACGAAACCTAC
1 AAGTTAATAGATGGGAAA-GGTTGATTGG-ACGAAACCAAC
* *
982291 AAGTTAATAGATGGGAAAGGTT-ACTAGGACGAAATCAAC
1 AAGTTAATAGATGGGAAAGGTTGA-TTGGACGAAACCAAC
* * *
982330 AAGTCAATAGATGGAAAAGTTTGATTGG
1 AAGTTAATAGATGGGAAAGGTTGATTGG
982358 GATGAAACTG
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
39 32 0.58
40 8 0.15
41 15 0.27
ACGTcount: A:0.41, C:0.08, G:0.27, T:0.24
Consensus pattern (39 bp):
AAGTTAATAGATGGGAAAGGTTGATTGGACGAAACCAAC
Found at i:982313 original size:81 final size:81
Alignment explanation
Indices: 982008--982310 Score: 242
Period size: 81 Copynumber: 3.8 Consensus size: 81
981998 GATGAAATTA
* * * * * *
982008 ATAAGTTAATAGGTAAGAAA-GGTTAGCTAGG-ACAAAACCTATATGTTAAAAGATGGAAAAGGG
1 ATAAGTTAATAGGTAA-AAAGGGTT-GATTGGTACAAAACCTACAAGTTAATAGATGGGAAAGGG
**
982071 TTAACCAGGATAAAATTT
64 TTAACCAGGATAAAATCG
* * * * * * ** *
982089 ATAAGTTAATAGGTGAAAAGGGTTGACT-GTGACGAAGCCAACAAGTCAAT-GCATGGG-GTGTG
1 ATAAGTTAATAGGTAAAAAGGGTTGATTGGT-ACAAAACCTACAAGTTAATAG-ATGGGAAAGGG
* *
982151 TTGACCA-GATGAAATCG
64 TTAACCAGGATAAAATCG
** * * * * * * * *
982168 ATAAGCCAACAAGTAAAAAAGGTTGATCGGAACAAAACCTATAGGTTAACAGAT-GGAAAGGGTT
1 ATAAGTTAATAGGTAAAAAGGGTTGATTGGTACAAAACCTACAAGTTAATAGATGGGAAAGGGTT
982232 AACCAGGATAAAATCG
66 AACCAGGATAAAATCG
*
982248 ATAAGTTAATAGGTGAAAAAGGGTTGATTGGTACGAAACCTACAAGTTAATAGATGGGAAAGG
1 ATAAGTTAATAGGT-AAAAAGGGTTGATTGGTACAAAACCTACAAGTTAATAGATGGGAAAGG
982311 TTACTAGGAC
Statistics
Matches: 161, Mismatches: 51, Indels: 19
0.70 0.22 0.08
Matches are distributed among these distances:
78 2 0.01
79 50 0.31
80 34 0.21
81 68 0.42
82 7 0.04
ACGTcount: A:0.42, C:0.10, G:0.26, T:0.22
Consensus pattern (81 bp):
ATAAGTTAATAGGTAAAAAGGGTTGATTGGTACAAAACCTACAAGTTAATAGATGGGAAAGGGTT
AACCAGGATAAAATCG
Found at i:982347 original size:81 final size:81
Alignment explanation
Indices: 982182--982347 Score: 174
Period size: 81 Copynumber: 2.1 Consensus size: 81
982172 GCCAACAAGT
* * *
982182 AAAAAAGGTTGATCGGAACAAAACCTATAGGTTAACAGATGGAAAGGGTTAACCAGGATAAAATC
1 AAAAAAGGTTGATCGGAACAAAACCTACAAGTTAACAGATGGAAAGGGTTAACCAGGACAAAATC
* * * *
982247 GATAAGTTAATAGGTG
66 AACAAGTCAATAGATG
* * * * * * *
982263 AAAAAGGGTTGATTGGTACGAAACCTACAAGTTAATAGATGGGAAA-GGTT-ACTAGGACGAAAT
1 AAAAAAGGTTGATCGGAACAAAACCTACAAGTTAACAGAT-GGAAAGGGTTAACCAGGACAAAAT
982326 CAACAAGTCAATAGATG
65 CAACAAGTCAATAGATG
*
982343 GAAAA
1 AAAAA
982348 GTTTGATTGG
Statistics
Matches: 69, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
80 27 0.39
81 37 0.54
82 5 0.07
ACGTcount: A:0.45, C:0.10, G:0.25, T:0.20
Consensus pattern (81 bp):
AAAAAAGGTTGATCGGAACAAAACCTACAAGTTAACAGATGGAAAGGGTTAACCAGGACAAAATC
AACAAGTCAATAGATG
Found at i:983512 original size:60 final size:59
Alignment explanation
Indices: 983439--983710 Score: 233
Period size: 60 Copynumber: 4.6 Consensus size: 59
983429 TCTATAAAAA
* * * *
983439 GGTATGGATGAAACCAGAGACCTAAACAATGACCTGGGCAAAACCAAGACCCAATGAAAT
1 GGTATGGATGAAACCA-AAACCTAAACAATGACTTAGGCAAAACCAAGACTCAATGAAAT
* * ** * * **
983499 GGTATGGATGAAACCAAAACCTAAATAATGATTTAGGTGAAACGAAGACTTAGCGAAAT
1 GGTATGGATGAAACCAAAACCTAAACAATGACTTAGGCAAAACCAAGACTCAATGAAAT
* * * * *
983558 GGCATGGATGAAACCAAAAGCCTAAACAATAAGTTAGGCAAAATCAAGATTCAATGAAAT
1 GGTATGGATGAAACCAAAA-CCTAAACAATGACTTAGGCAAAACCAAGACTCAATGAAAT
** ** * * * * *
983618 GGCCTAAATGAAACCAAAAATCTAAGCAATGAGTTGGGCAAAATCAAGACTCAATGAAAT
1 GGTATGGATGAAACC-AAAACCTAAACAATGACTTAGGCAAAACCAAGACTCAATGAAAT
* *
983678 AGCT-TGGATAAAACCAAAAACCTAAA-AATGACT
1 -GGTATGGATGAAACC-AAAACCTAAACAATGACT
983711 ATATATGAGT
Statistics
Matches: 169, Mismatches: 40, Indels: 7
0.78 0.19 0.03
Matches are distributed among these distances:
59 55 0.33
60 109 0.64
61 5 0.03
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.18
Consensus pattern (59 bp):
GGTATGGATGAAACCAAAACCTAAACAATGACTTAGGCAAAACCAAGACTCAATGAAAT
Found at i:989294 original size:31 final size:31
Alignment explanation
Indices: 989216--989328 Score: 136
Period size: 32 Copynumber: 3.6 Consensus size: 31
989206 CGACATTAGG
* * * *
989216 TTTAGAAAGGTTGCCGCCAACTCGTGTAGGT
1 TTTAGAAAGGTTGCCACCAACTTGTGTGGGC
989247 TTTAGAGAAGGTTGCCACCAACTTGTGTGGGC
1 TTTAGA-AAGGTTGCCACCAACTTGTGTGGGC
* ** *
989279 TTTAGAAGGGTTGCCACTGACCTGTGTGGGC
1 TTTAGAAAGGTTGCCACCAACTTGTGTGGGC
989310 TTTAGAAAAGGTTGCCACC
1 TTTAG-AAAGGTTGCCACC
989329 GAATTGTAGG
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
31 32 0.46
32 38 0.54
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.28
Consensus pattern (31 bp):
TTTAGAAAGGTTGCCACCAACTTGTGTGGGC
Found at i:989371 original size:28 final size:28
Alignment explanation
Indices: 989272--990000 Score: 717
Period size: 28 Copynumber: 25.7 Consensus size: 28
989262 CACCAACTTG
*
989272 TGTGGGCTTT-AGAAGGGTTGCCACTGACCT
1 TGTGGGCTTTGA-AAAGG-TGCCACTGA-CT
* *
989302 GTGTGGGCTTTAGAAAAGGTTGCCACCGAAT
1 -TGTGGGCTTT-GAAAAGG-TGCCACTGACT
* *
989333 TGTAGGCTTTGAAAAGGTTCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* * *
989361 TGTGGGTTTTGAAAGGGTGCCAATGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* * *
989389 TGTAGGCTTTG-AAAGGATGGCACTGACG
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* *
989417 TGCGGGCTTTGAAAAGGTACCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
989445 TGTGAGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
** *
989473 TGCAGGCTTTGAAAAGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
** * *
989501 TGCAGGCTTTGAAAAGGTGCCATTGGCT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
989529 TGCGGGCTTTGAAATGGGTTGCCACTGACT
1 TGTGGGCTTTGAAA-AGG-TGCCACTGACT
* * * *
989559 TGTAGGCTCTG-AAAGGATGCCATTCACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* *
989587 TGCGGGCCTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
*
989615 TGTGGGCTTTG-AAAGGATGTCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
989643 TGTGGGCTTTGAAAATGGATGCCACTGACT
1 TGTGGGCTTTGAAAA-GG-TGCCACTGACT
* *
989673 CGTGGGCTTTG--AAGGATG-CAATCGACT
1 TGTGGGCTTTGAAAAGG-TGCCACT-GACT
*
989700 TGTGGGCTTTG-AAAGGATGCCACTTACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
*
989728 TGTTGGCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* *
989756 TGCGGGCTCT-AAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* * *
989784 TGTAGGCTCTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
989812 TGTGGGCTTTG-AAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAG-GTGCCACTGACT
* *
989840 TGTGGGCTTTGAAAAGTTGCCAATGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
** * *
989868 AATGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* * *
989896 TATCGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
989924 TGTGGGCTTTGAAAAGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
989952 TGTGGGCTTTGAAAAGGGATGCCACTGACT
1 TGTGGGCTTTGAAAA-GG-TGCCACTGACT
* *
989982 CGGGGGCTTTGAAAAGGTG
1 TGTGGGCTTTGAAAAGGTG
990001 TCGTATTGAC
Statistics
Matches: 593, Mismatches: 88, Indels: 37
0.83 0.12 0.05
Matches are distributed among these distances:
26 3 0.01
27 27 0.05
28 431 0.73
29 35 0.06
30 72 0.12
31 11 0.02
32 13 0.02
33 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACT
Found at i:990777 original size:10 final size:10
Alignment explanation
Indices: 990764--990800 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
990754 CCTTTTTGTA
990764 TTGTTTTTTT
1 TTGTTTTTTT
990774 TTGTTTTTTT
1 TTGTTTTTTT
990784 TAT-TTTTTTT
1 T-TGTTTTTTT
990794 TTGTTTT
1 TTGTTTT
990801 GCTTTTTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 1 0.04
10 23 0.92
11 1 0.04
ACGTcount: A:0.03, C:0.00, G:0.08, T:0.89
Consensus pattern (10 bp):
TTGTTTTTTT
Found at i:996770 original size:15 final size:15
Alignment explanation
Indices: 996728--996775 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
996718 GCAGAGTATC
996728 GATGATTTTGTGGTG
1 GATGATTTTGTGGTG
* * **
996743 GGTAATTAGGTGGTG
1 GATGATTTTGTGGTG
996758 GATGATTTTGTGGTG
1 GATGATTTTGTGGTG
996773 GAT
1 GAT
996776 TTGGCGGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.42
Consensus pattern (15 bp):
GATGATTTTGTGGTG
Found at i:1011695 original size:92 final size:93
Alignment explanation
Indices: 1011507--1011674 Score: 207
Period size: 92 Copynumber: 1.8 Consensus size: 93
1011497 GTATCGATAC
* * * *
1011507 AAATAAGGGTTTCAAGATTTGTTTAGCTATTGCCAACAAGATGTATCGATACATTCACATAATGT
1 AAATAAAGGTTTCAAGATTTGTGTAGCTATTACCAACAAGATATATCGATACATTCACATAATGT
* * *
1011572 ATTGATACATTTTCACTTGTATTAATAA
66 ATTGATACATTATCACTTGAATTAAGAA
* *
1011600 AAATAAAGGTTTC-AGCATTT-TGTAGCTATTACCAACCATATATATCGATACATTCACA-AGAT
1 AAATAAAGGTTTCAAG-ATTTGTGTAGCTATTACCAACAAGATATATCGATACATTCACATA-AT
*
1011662 GTATTGATGCATT
64 GTATTGATACATT
1011675 CCATCCTTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
91 1 0.02
92 49 0.74
93 16 0.24
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (93 bp):
AAATAAAGGTTTCAAGATTTGTGTAGCTATTACCAACAAGATATATCGATACATTCACATAATGT
ATTGATACATTATCACTTGAATTAAGAA
Found at i:1012604 original size:153 final size:153
Alignment explanation
Indices: 1012254--1013071 Score: 676
Period size: 153 Copynumber: 5.3 Consensus size: 153
1012244 AATATCTTGA
* * * * * *
1012254 TAACCCTAAAGGACACGAAAATGATGTAAAAGGACGCACCTATCCTAAAAGCATA-CTTTGGCAT
1 TAACCTTAAAAGACACAAAAATGATATAAAAGGATGAACCTATCCTAAAAGCATACCTTTGGCAT
* * * * * * *
1012318 AAAAGCAACCAAGTGATTACTTAGGACTCAGTTCAAAGAAAAATTACCAGAATGCCTATAAGATA
66 AAAAGCAACCTAGTGATTACTTAGGACTTAGTTTAAAG-AAAATTACCAAAATACCCAT-AGGTA
* * *
1012383 TACCTTCGACGTGAAAGCATCCCGG
129 TACTTTCGACGTGAAAGTATCTCGG
** ** *
1012408 TAA-CTCTAAAAGACATGAAAATGATGCAACAA-GAGGAACCTATCCTAAAAGCATACCTTTGGC
1 TAACCT-TAAAAGACACAAAAATGATATAA-AAGGATGAACCTATCCTAAAAGCATACCTTTGGC
** * * * *
1012471 ATAAAAGTGACCTAGTGATTACTTAAGACTTTGTTTAAAGAAAATTACCAAAATGCCCCTAGGTA
64 ATAAAAGCAACCTAGTGATTACTTAGGACTTAGTTTAAAGAAAATTACCAAAATACCCATAGGTA
* * *
1012536 TATTTTCAACGTGAAAGTATCTAGG
129 TACTTTCGACGTGAAAGTATCTCGG
* * * *
1012561 TAACCTTAAAAGACACAAAAATGATATAAAAGGATAAATCTATCCTAAATAG-GTGCCTTTGGCA
1 TAACCTTAAAAGACACAAAAATGATATAAAAGGATGAACCTATCCTAAA-AGCATACCTTTGGCA
* * * * **
1012625 TAAAAGCAACCCAGTGATTAAC-TAGGACTCAATTTAAGAGAAAAATTACTAAAATACCTTTAAG
65 TAAAAGCAACCTAGTGATT-ACTTAGGACTTAGTTTAA-AG-AAAATTACCAAAATACCCAT-AG
* ** * *
1012689 ATATA-TCTTCGATATGAAAATATCCCGG
126 GTATACT-TTCGACGTGAAAGTATCTCGG
* * * *
1012717 TAACCTTAAAAGACATAAAAATGATATAAAAGAATGAACCTATCCTAAAAACATACTTTTGGCAT
1 TAACCTTAAAAGACACAAAAATGATATAAAAGGATGAACCTATCCTAAAAGCATACCTTTGGCAT
* * * * * * * * *
1012782 AAAAACAACC-CGATAATTACATAGGACTTAGTTCAAGAAAAAATTACCAAACTACCCTTAAGTA
66 AAAAGCAACCTAG-TGATTACTTAGGACTTAGTTTAA-AGAAAATTACCAAAATACCCATAGGTA
* *
1012846 TACCTTTAG-CATGAAAGTATCTC-G
129 TA-CTTTCGACGTGAAAGTATCTCGG
* * * * * *
1012870 AAAGCCCTAAAAGACAC-GAAATGATATAAAAAGATGAACTTATCCTAAAAGCATACTTTTGGCA
1 TAA-CCTTAAAAGACACAAAAATGATATAAAAGGATGAACCTATCCTAAAAGCATACCTTTGGCA
* * * * * *
1012934 TAAAA-CTGACTTGGTGATTTCTTAGGACTT-GATTTAAA-AAAATTATCAAAATACCCATGGGC
65 TAAAAGC-AACCTAGTGATTACTTAGGACTTAG-TTTAAAGAAAATTACCAAAATACCCATAGG-
* * *
1012996 TATACCTTT-GATGTGAACGTATCTTGG
127 TATA-CTTTCGACGTGAAAGTATCTCGG
*
1013023 TAA-CTCTAAAAGACACAAAAATGATATAAAAGGATGAACTTATCCTAAA
1 TAACCT-TAAAAGACACAAAAATGATATAAAAGGATGAACCTATCCTAAA
1013072 TGGGTAATTT
Statistics
Matches: 537, Mismatches: 102, Indels: 51
0.78 0.15 0.07
Matches are distributed among these distances:
151 20 0.04
152 34 0.06
153 199 0.37
154 97 0.18
155 83 0.15
156 104 0.19
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (153 bp):
TAACCTTAAAAGACACAAAAATGATATAAAAGGATGAACCTATCCTAAAAGCATACCTTTGGCAT
AAAAGCAACCTAGTGATTACTTAGGACTTAGTTTAAAGAAAATTACCAAAATACCCATAGGTATA
CTTTCGACGTGAAAGTATCTCGG
Found at i:1012962 original size:309 final size:303
Alignment explanation
Indices: 1012122--1013071 Score: 844
Period size: 309 Copynumber: 3.1 Consensus size: 303
1012112 GAAAACAACT
* * ** * *
1012122 TAAAATGATGAATCTATCCCTAAACACACAAACCTTTGGCATAAAAATGACTCGA-TAACTACCT
1 TAAAA-GATGAACCTAT-CCTAAA-A-ACATACCTTTGGCATAAAAACAAC-CGAGTAATTACAT
* * * * * *
1012186 AAGACTCAATTCTATATAAAATTACTAAAATACCCTTGAAGTATACCTTTA-ATGTAAAAATATC
61 AAGACTTAGTTC-AAAAAAAATTACCAAAATACCCTT-AAGTATACCTTTACATG--AAAGTATC
* * * * * *
1012250 TTGATAACCCTAAAGGACACGAAAATGATGTAAAAGGACGCACCTATCCTAAAAGCATACTTTGG
122 TCGA-AACCCTAAAAGACACG-AAATGATATAAAAGGATGAACTTATCCTAAAAGCATACTTTGG
* * * * *
1012315 CATAAAAGCAACCAAGTGATTACTTAGGACTCAGTTCAAAGAAAAATTACCAGAATGCCTATAAG
185 CATAAAAGCAACCAAGTGATTACTTAGGACTCAATTTAAAGAAAAATTACTAAAATACCTATAAG
* * * *
1012380 ATATACCTTCGACGTGAAAGCATCCCGGTAACTCTAAAAGACATGAAAATGATG
250 ATATACCTTCGATGTGAAAGTATCCCGGTAACTCTAAAAGACATAAAAATGATA
* * * *** * * *
1012434 CAACAAGAGGAACCTATCCTAAAAGCATACCTTTGGCATAAAAGTGACCTAGTGATTACTTAAGA
1 TAA-AAGATGAACCTATCCTAAAAACATACCTTTGGCATAAAAACAACCGAGTAATTACATAAGA
* * * * * * * * * *
1012499 CTTTGTTTAAAGAAAATTACCAAAATGCCCCTAGGTATA-TTTTCAACGTGAAAGTATCTAGGTA
65 CTTAGTTCAAAAAAAATTACCAAAATACCCTTAAGTATACCTTT--ACATGAAAGTATCT-CGAA
* * * * *
1012563 ACCTTAAAAGACACAAAAATGATATAAAAGGAT-AAATCTATCCTAAATAG-GTGCCTTTGGCAT
127 ACCCTAAAAGACAC-GAAATGATATAAAAGGATGAACT-TATCCTAAA-AGCAT-ACTTTGGCAT
* *
1012626 AAAAGCAACCCAGTGATTAAC-TAGGACTCAATTTAAGAGAAAAATTACTAAAATACCTTTAAGA
188 AAAAGCAACCAAGTGATT-ACTTAGGACTCAATTTAA-AGAAAAATTACTAAAATACCTATAAGA
* * *
1012690 TATATCTTCGATATGAAAATATCCCGGTAAC-CTTAAAAGACATAAAAATGATA
251 TATACCTTCGATGTGAAAGTATCCCGGTAACTC-TAAAAGACATAAAAATGATA
* *
1012743 TAAAAGAATGAACCTATCCTAAAAACATACTTTTGGCATAAAAACAACCCGA-TAATTACATAGG
1 TAAAAG-ATGAACCTATCCTAAAAACATACCTTTGGCATAAAAACAA-CCGAGTAATTACATAAG
*
1012807 ACTTAGTTCAAGAAAAAATTACCAAACTACCCTTAAGTATACCTTTAGCATGAAAGTATCTCGAA
64 ACTTAGTTCAA-AAAAAATTACCAAAATACCCTTAAGTATACCTTTA-CATGAAAGTATCTCGAA
*
1012872 AGCCCTAAAAGACACGAAATGATATAAAAAGATGAACTTATCCTAAAAGCATACTTTTGGCATAA
127 A-CCCTAAAAGACACGAAATGATATAAAAGGATGAACTTATCCTAAAAGCATAC-TTTGGCATAA
* *** * ** * ** *
1012937 AA-CTGACTTGGTGATTTCTTAGGACTTGATTT-AA-AAAAATTA-TCAAAATACCCATGGGCTA
190 AAGC-AACCAAGTGATTACTTAGGACTCAATTTAAAGAAAAATTACT-AAAATACCTATAAGATA
* * ** *
1012998 TACCTTTGATGTGAACGTATCTTGGTAACTCTAAAAGACACAAAAATGATA
253 TACCTTCGATGTGAAAGTATCCCGGTAACTCTAAAAGACATAAAAATGATA
*
1013049 TAAAAGGATGAACTTATCCTAAA
1 TAAAA-GATGAACCTATCCTAAA
1013072 TGGGTAATTT
Statistics
Matches: 513, Mismatches: 98, Indels: 60
0.76 0.15 0.09
Matches are distributed among these distances:
305 1 0.00
306 85 0.17
307 55 0.11
308 74 0.14
309 221 0.43
310 55 0.11
311 9 0.02
312 11 0.02
313 2 0.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.26
Consensus pattern (303 bp):
TAAAAGATGAACCTATCCTAAAAACATACCTTTGGCATAAAAACAACCGAGTAATTACATAAGAC
TTAGTTCAAAAAAAATTACCAAAATACCCTTAAGTATACCTTTACATGAAAGTATCTCGAAACCC
TAAAAGACACGAAATGATATAAAAGGATGAACTTATCCTAAAAGCATACTTTGGCATAAAAGCAA
CCAAGTGATTACTTAGGACTCAATTTAAAGAAAAATTACTAAAATACCTATAAGATATACCTTCG
ATGTGAAAGTATCCCGGTAACTCTAAAAGACATAAAAATGATA
Found at i:1013050 original size:462 final size:463
Alignment explanation
Indices: 1012203--1013072 Score: 1057
Period size: 462 Copynumber: 1.9 Consensus size: 463
1012193 AATTCTATAT
* * ** *
1012203 AAAATTACTAAAATACCCTTGAAGTATACCTTTAATGTAAAAATATCTTGATAACCCTAAAGGAC
1 AAAATTACTAAAATACCCTTGAAGTATACCTTCAATATAAAAATATCCCGATAACCCTAAAAGAC
* * * * * * *
1012268 ACGAAAATGATGTAAAAGGACGCACCTATCCTAAAAGCATACTTTGGCATAAAAGCAACCAAGTG
66 ACAAAAATGATATAAAAGAACGAACCTATCCTAAAAACATACTTTGGCATAAAAACAACCAAGTA
* * * *
1012333 ATTACTTAGGACTCAGTTCAAAGAAAAATTACCAGAATGCCTATAAGATATACCTTCGACGTGAA
131 ATTACATAGGACTCAGTTCAAAGAAAAATTACCAGAATCCCTATAAGATATACCTTAGACATGAA
* * * * *
1012398 AGCATCCCGGTAACTCTAAAAGACATGAAAATGATGCAACAAGAGGAACCTATCCTAAAAGCATA
196 AGCATCCCGGAAACCCTAAAAGACACGAAAATGATACAAAAAGAGGAACCTATCCTAAAAGCATA
* *
1012463 CCTTTGGCATAAAAGTGACCTAGTGATTACTTAAGACTTTGTTTAAAGAAAATTACCAAAATGCC
261 CCTTTGGCATAAAACTGACCTAGTGATTACTTAAGACTTTGTTTAAAGAAAATTACCAAAATACC
* *
1012528 CCTAGGTATATTTTCAACGTGAAAGTATCTAGGTAACCTTAAAAGACACAAAAATGATATAAAAG
326 CATAGGTATACTTTCAACGTGAAAGTATCTAGGTAACCTTAAAAGACACAAAAATGATATAAAAG
1012593 GATAAA-TCTATCCTAAATAGGTGCCTTTGGCATAAAAGCAACCCAGTGATTAACTAGGACTCAA
391 GATAAACT-TATCCTAAATAGGTGCCTTTGGCATAAAAGCAACCCAGTGATTAACTAGGACTCAA
1012657 TTTAAGAGA
455 TTTAAGAGA
* * * * * *
1012666 AAAATTACTAAAATA-CCTTTAAGATATATCTTCGATATGAAAATATCCCGGTAACCTTAAAAGA
1 AAAATTACTAAAATACCCTTGAAG-TATACCTTCAATATAAAAATATCCCGATAACCCTAAAAGA
* * *
1012730 CATAAAAATGATATAAAAGAATGAACCTATCCTAAAAACATACTTTTGGCATAAAAACAACC-CG
65 CACAAAAATGATATAAAAGAACGAACCTATCCTAAAAACATAC-TTTGGCATAAAAACAACCAAG
*
1012794 ATAATTACATAGGACTTAGTTC-AAGAAAAAATTACCA-AACTACCCT-TAAG-TATACCTTTAG
129 -TAATTACATAGGACTCAGTTCAAAG-AAAAATTACCAGAA-T-CCCTATAAGATATACC-TTAG
* * * * *
1012855 -CATGAAAGTATCTC-GAAAGCCCTAAAAGACACG-AAATGATATAAAAAGATGAACTTATCCTA
189 ACATGAAAGCATCCCGGAAA-CCCTAAAAGACACGAAAATGATACAAAAAGAGGAACCTATCCTA
* * * * * *
1012917 AAAGCATACTTTTGGCATAAAACTGACTTGGTGATTTCTTAGGAC-TTGATTTAAA-AAAATTAT
253 AAAGCATACCTTTGGCATAAAACTGACCTAGTGATTACTTAAGACTTTG-TTTAAAGAAAATTAC
* * * * *
1012980 CAAAATACCCATGGGCTATACCTTT-GATGTGAACGTATCTTGGTAA-CTCTAAAAGACACAAAA
317 CAAAATACCCATAGG-TATA-CTTTCAACGTGAAAGTATCTAGGTAACCT-TAAAAGACACAAAA
*
1013043 ATGATATAAAAGGATGAACTTATCCTAAAT
379 ATGATATAAAAGGATAAACTTATCCTAAAT
1013073 GGGTAATTTG
Statistics
Matches: 342, Mismatches: 52, Indels: 27
0.81 0.12 0.06
Matches are distributed among these distances:
461 24 0.07
462 141 0.41
463 120 0.35
464 54 0.16
465 3 0.01
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (463 bp):
AAAATTACTAAAATACCCTTGAAGTATACCTTCAATATAAAAATATCCCGATAACCCTAAAAGAC
ACAAAAATGATATAAAAGAACGAACCTATCCTAAAAACATACTTTGGCATAAAAACAACCAAGTA
ATTACATAGGACTCAGTTCAAAGAAAAATTACCAGAATCCCTATAAGATATACCTTAGACATGAA
AGCATCCCGGAAACCCTAAAAGACACGAAAATGATACAAAAAGAGGAACCTATCCTAAAAGCATA
CCTTTGGCATAAAACTGACCTAGTGATTACTTAAGACTTTGTTTAAAGAAAATTACCAAAATACC
CATAGGTATACTTTCAACGTGAAAGTATCTAGGTAACCTTAAAAGACACAAAAATGATATAAAAG
GATAAACTTATCCTAAATAGGTGCCTTTGGCATAAAAGCAACCCAGTGATTAACTAGGACTCAAT
TTAAGAGA
Found at i:1015008 original size:24 final size:25
Alignment explanation
Indices: 1014967--1015015 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
1014957 TTTCCCCAAA
*
1014967 TATTTTACGAATAAAGAAAAGATTG
1 TATTTTACGAATAAAGAAAAAATTG
**
1014992 TATTTTA-GAATCGAGAAAAAATTG
1 TATTTTACGAATAAAGAAAAAATTG
1015016 AAGAAATACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.47, C:0.04, G:0.16, T:0.33
Consensus pattern (25 bp):
TATTTTACGAATAAAGAAAAAATTG
Found at i:1019411 original size:22 final size:24
Alignment explanation
Indices: 1019381--1019424 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
1019371 CTTCTCAATC
*
1019381 TCTTCAAGAG-TTATACCCCAAAT
1 TCTTCAAGAGATTATAACCCAAAT
1019404 TCTT-AAGAGATTATAACCCAA
1 TCTTCAAGAGATTATAACCCAA
1019425 GGTTGAATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.30
Consensus pattern (24 bp):
TCTTCAAGAGATTATAACCCAAAT
Found at i:1019936 original size:20 final size:20
Alignment explanation
Indices: 1019911--1019948 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1019901 TACTGCCAAT
1019911 TTCATGTATCGAAACAATTC
1 TTCATGTATCGAAACAATTC
*
1019931 TTCATGTATCGATACAAT
1 TTCATGTATCGAAACAAT
1019949 GAACATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (20 bp):
TTCATGTATCGAAACAATTC
Found at i:1020614 original size:32 final size:32
Alignment explanation
Indices: 1020573--1020637 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
1020563 ACTCCCCCTT
*
1020573 AATAACTACTCCCCCTTTTTGTTATTCTTCTC
1 AATAACTACTCCCCCTTTTTGTTATTCCTCTC
**
1020605 AATAACTACTTTCCCTTTTTGTTATTCCTCTC
1 AATAACTACTCCCCCTTTTTGTTATTCCTCTC
1020637 A
1 A
1020638 TTTTAAACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.20, C:0.29, G:0.03, T:0.48
Consensus pattern (32 bp):
AATAACTACTCCCCCTTTTTGTTATTCCTCTC
Found at i:1033046 original size:20 final size:20
Alignment explanation
Indices: 1033021--1033074 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
1033011 ATATCGATAC
* **
1033021 AATGTATCGGTACATGACTA
1 AATGTATCGATACATGAAAA
*
1033041 AATGTATCGATACTTGAAAA
1 AATGTATCGATACATGAAAA
1033061 AATGTATCGATACA
1 AATGTATCGATACA
1033075 AGTCATTAGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACATGAAAA
Found at i:1033144 original size:13 final size:13
Alignment explanation
Indices: 1033126--1033150 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1033116 ACACAGAGTA
1033126 TGTATCGATACAT
1 TGTATCGATACAT
1033139 TGTATCGATACA
1 TGTATCGATACA
1033151 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1033147 original size:32 final size:33
Alignment explanation
Indices: 1033106--1033173 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
1033096 GTAGCTAAAC
**
1033106 TTGTATCGATACA-CAGAGTATGTATCGATACA
1 TTGTATCGATACACCAGAAAATGTATCGATACA
*
1033138 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCAGAAAATGTATCGATACA
1033171 TTG
1 TTG
1033174 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCAGAAAATGTATCGATACA
Found at i:1039363 original size:13 final size:13
Alignment explanation
Indices: 1039345--1039380 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
1039335 ACATTCTCTA
*
1039345 TATCGATACATTG
1 TATCGATACACTG
1039358 TATCGATACACTG
1 TATCGATACACTG
1039371 TATCGATACA
1 TATCGATACA
1039381 AGGGGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (13 bp):
TATCGATACACTG
Found at i:1040088 original size:20 final size:20
Alignment explanation
Indices: 1040063--1040117 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1040053 AAAACCCTTA
1040063 AAAGTATCGATACATAATT-C
1 AAAGTATCGATACAT-ATTGC
*
1040083 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATATTGC
*
1040103 AATGTATCGATACAT
1 AAAGTATCGATACAT
1040118 CAAAAATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
AAAGTATCGATACATATTGC
Found at i:1042424 original size:21 final size:21
Alignment explanation
Indices: 1042391--1042440 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
1042381 TTGCAAGTTG
*
1042391 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1042413 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
1042434 AAATAAA
1 AAATAAA
1042441 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1044258 original size:15 final size:15
Alignment explanation
Indices: 1044238--1044268 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1044228 TAAAAATATC
*
1044238 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1044253 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1044268 C
1 C
1044269 TAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1046357 original size:13 final size:13
Alignment explanation
Indices: 1046339--1046363 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1046329 CATTTTTCTT
1046339 TGTATCGATACAC
1 TGTATCGATACAC
1046352 TGTATCGATACA
1 TGTATCGATACA
1046364 GGGGGATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1046518 original size:20 final size:19
Alignment explanation
Indices: 1046477--1046519 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
1046467 ATCTTTTACA
1046477 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
1046497 AAATCACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
1046517 AAA
1 AAA
1046520 ACCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:1048913 original size:13 final size:13
Alignment explanation
Indices: 1048895--1048919 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1048885 TAGCCAAACT
1048895 TGTATCGATACAA
1 TGTATCGATACAA
1048908 TGTATCGATACA
1 TGTATCGATACA
1048920 CAAAAAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1049723 original size:21 final size:20
Alignment explanation
Indices: 1049698--1049749 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
1049688 CCCCTAGGCA
*
1049698 GCACCCACCAGGTCGCGACCG
1 GCACCC-CCAGGTCGCAACCG
*
1049719 GCACCCCTAGGTCGCAACCGG
1 GCACCCCCAGGTCGCAACC-G
1049740 GCAGCCCCCA
1 GCA-CCCCCA
1049750 CACTAGCAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 11 0.42
21 10 0.38
22 5 0.19
ACGTcount: A:0.19, C:0.48, G:0.27, T:0.06
Consensus pattern (20 bp):
GCACCCCCAGGTCGCAACCG
Found at i:1051086 original size:19 final size:19
Alignment explanation
Indices: 1051062--1051099 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1051052 AAATAAATTT
1051062 TATGATTAAAGGGGAGAAA
1 TATGATTAAAGGGGAGAAA
*
1051081 TATGATTAAGGGGGAGAAA
1 TATGATTAAAGGGGAGAAA
1051100 GAAATGGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.34, T:0.21
Consensus pattern (19 bp):
TATGATTAAAGGGGAGAAA
Found at i:1051737 original size:20 final size:20
Alignment explanation
Indices: 1051712--1051765 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
1051702 GTATCGATAC
**
1051712 AATGTATCGATACATGACTA
1 AATGTATCGATACATGAAAA
*
1051732 AATGTATCGATACTTGAAAA
1 AATGTATCGATACATGAAAA
1051752 AATGTATCGATACA
1 AATGTATCGATACA
1051766 AGTCATTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACATGAAAA
Found at i:1051835 original size:13 final size:13
Alignment explanation
Indices: 1051817--1051841 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1051807 ACACACAGTA
1051817 TGTATCGATACAT
1 TGTATCGATACAT
1051830 TGTATCGATACA
1 TGTATCGATACA
1051842 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1051838 original size:32 final size:33
Alignment explanation
Indices: 1051797--1051864 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
1051787 GTAGCTAAAC
**
1051797 TTGTATCGATACA-CACAGTATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
*
1051829 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
1051862 TTG
1 TTG
1051865 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCACAAAATGTATCGATACA
Found at i:1057206 original size:3 final size:3
Alignment explanation
Indices: 1057198--1057238 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1057188 CAAGTCAACT
1057198 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1057239 CTTGATGGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:1058913 original size:18 final size:18
Alignment explanation
Indices: 1058871--1058924 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
1058861 TACCAGTTTT
**
1058871 ATGTATCAATACAATTCTTC
1 ATGTATCAATACAA-T-GAC
1058891 ATGTATCAATACAATGAC
1 ATGTATCAATACAATGAC
*
1058909 ATGTATCGATACAATG
1 ATGTATCAATACAATG
1058925 TATCAATACA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 16 0.52
19 1 0.03
20 14 0.45
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (18 bp):
ATGTATCAATACAATGAC
Found at i:1060462 original size:25 final size:23
Alignment explanation
Indices: 1060434--1060484 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
1060424 GTATCGATAC
1060434 TTTGAATAATTCTACTTGAAAAACA
1 TTTGAATAATTCT--TTGAAAAACA
* * *
1060459 TTTGATTTATTGTTTGAAAAACA
1 TTTGAATAATTCTTTGAAAAACA
1060482 TTT
1 TTT
1060485 AAACTTATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 13 0.57
25 10 0.43
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (23 bp):
TTTGAATAATTCTTTGAAAAACA
Found at i:1061049 original size:43 final size:43
Alignment explanation
Indices: 1060960--1061073 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
1060950 CACTTGTATG
*
1060960 TACATAT-GCACAA-T-TATGTACATAAAGTAAAAACTATATA
1 TACATATAGCACAATTATATGTACATAAAGTAAAAACTATACA
* **
1061000 TGCATATAGCACAATTATATGTACATGCAGTAAAAA-TGATACA
1 TACATATAGCACAATTATATGTACATAAAGTAAAAACT-ATACA
* * * *
1061043 TACATATAACATAATTACATGCACATAAAGT
1 TACATATAGCACAATTATATGTACATAAAGT
1061074 TTTTAGTATT
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
40 6 0.10
41 6 0.10
42 2 0.03
43 45 0.76
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (43 bp):
TACATATAGCACAATTATATGTACATAAAGTAAAAACTATACA
Found at i:1063483 original size:28 final size:28
Alignment explanation
Indices: 1063392--1063483 Score: 112
Period size: 28 Copynumber: 3.3 Consensus size: 28
1063382 TACTTTAGAC
** * *
1063392 ATTGTCTTGTTAAGATAAGTTTATCAAC
1 ATTGTCTTGTTAAGATAAACTTATCCAT
*
1063420 ATTGTCTTGTTAAGACAAACTTATCCAT
1 ATTGTCTTGTTAAGATAAACTTATCCAT
* *
1063448 ATTATCTTGTTATGATAAACTTATCCAT
1 ATTGTCTTGTTAAGATAAACTTATCCAT
*
1063476 TTTGTCTT
1 ATTGTCTT
1063484 AATGTATACT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (28 bp):
ATTGTCTTGTTAAGATAAACTTATCCAT
Found at i:1063549 original size:78 final size:80
Alignment explanation
Indices: 1063418--1063617 Score: 219
Period size: 78 Copynumber: 2.5 Consensus size: 80
1063408 AAGTTTATCA
*
1063418 ACATTGTCTTGTTAAGACAAACTTATCCATATTATCTTGTTATGATAAACTTATCCATTTTGTCT
1 ACATTGTCTTGTTAAGACAAACTTATCCATATTATCTTGTTATGACAAACTTATCCATTTTGTCT
1063483 TAATGTATACTTTAG
66 TAATGTATACTTTAG
* ** * * *
1063498 ACATTGT-TTGTTAA-ACAACCTTATCTGTATTGTCTTATT-TAGACAAGCTTATCCATTTTGTC
1 ACATTGTCTTGTTAAGACAAACTTATCCATATTATCTTGTTAT-GACAAACTTATCCATTTTGTC
* *
1063560 TTAACACATCTCTACTTTAG
65 TT---A-ATGTATACTTTAG
* *
1063580 ACATTGTCTTGTTGAGA-AAACGTTATCCATATTGTCTT
1 ACATTGTCTTGTTAAGACAAAC-TTATCCATATTATCTT
1063618 AAACATATAT
Statistics
Matches: 99, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
77 1 0.01
78 41 0.41
79 7 0.07
80 7 0.07
81 1 0.01
82 18 0.18
83 9 0.09
84 15 0.15
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (80 bp):
ACATTGTCTTGTTAAGACAAACTTATCCATATTATCTTGTTATGACAAACTTATCCATTTTGTCT
TAATGTATACTTTAG
Found at i:1065374 original size:21 final size:21
Alignment explanation
Indices: 1065336--1065377 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1065326 AATTATTTTT
*
1065336 TATTTAAATTTATGTATAAAA
1 TATTTAAATTTATATATAAAA
1065357 TATTTAAATATTA-ATATAAAA
1 TATTTAAAT-TTATATATAAAA
1065378 ATAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TATTTAAATTTATATATAAAA
Found at i:1066238 original size:4 final size:4
Alignment explanation
Indices: 1066229--1066253 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1066219 TTTGATTATC
1066229 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
1066254 GAAAGCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:1066849 original size:2 final size:2
Alignment explanation
Indices: 1066842--1066933 Score: 57
Period size: 2 Copynumber: 47.5 Consensus size: 2
1066832 AATCTCATAA
* * *
1066842 AT AT AT AT -T AA AT AT AT AT AC AT AT AT AT AT AT AA AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
1066882 AT AT AGT CT AA AT A- AT AT AC AA AT AT AT AT AT AG AT AT AA AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1066924 -T AT AG AT AT A
1 AT AT AT AT AT A
1066934 AAATAAAAAT
Statistics
Matches: 66, Mismatches: 19, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
1 4 0.06
2 61 0.92
3 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.39
Consensus pattern (2 bp):
AT
Found at i:1066871 original size:25 final size:25
Alignment explanation
Indices: 1066837--1066914 Score: 79
Period size: 25 Copynumber: 3.0 Consensus size: 25
1066827 TACAGAATCT
1066837 CATAAATATATATTAAAT-ATATATA
1 CATAAATATATA-TAAATAATATATA
*
1066862 CATATATATATATAAATAATATATA
1 CATAAATATATATAAATAATATATA
*
1066887 GTC-TAAATAATATACAAATATATATATA
1 --CATAAAT-ATATATAAATA-ATATATA
1066915 GATATAAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
24 5 0.11
25 18 0.40
26 4 0.09
27 11 0.24
28 7 0.16
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.38
Consensus pattern (25 bp):
CATAAATATATATAAATAATATATA
Found at i:1066893 original size:16 final size:15
Alignment explanation
Indices: 1066853--1066939 Score: 72
Period size: 14 Copynumber: 5.9 Consensus size: 15
1066843 TATATATTAA
*
1066853 ATATATATACAT-AT
1 ATATATATAAATAAT
1066867 ATATATATAAATAAT
1 ATATATATAAATAAT
*
1066882 ATATAGTCTAAATAAT
1 ATATA-TATAAATAAT
* * *
1066898 ATACAAATATAT-AT
1 ATATATATAAATAAT
* *
1066912 ATAGATATAAATTAT
1 ATATATATAAATAAT
*
1066927 AGATATA-AAATAA
1 ATATATATAAATAA
1066940 AAATTTTATT
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
14 27 0.47
15 18 0.31
16 13 0.22
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.37
Consensus pattern (15 bp):
ATATATATAAATAAT
Found at i:1066929 original size:13 final size:13
Alignment explanation
Indices: 1066911--1066935 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1066901 CAAATATATA
1066911 TATAGATATAAAT
1 TATAGATATAAAT
1066924 TATAGATATAAA
1 TATAGATATAAA
1066936 ATAAAAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
TATAGATATAAAT
Found at i:1066939 original size:43 final size:40
Alignment explanation
Indices: 1066838--1066935 Score: 105
Period size: 39 Copynumber: 2.5 Consensus size: 40
1066828 ACAGAATCTC
* *
1066838 ATAA-ATATATAT-TAAATATATATACATATATATATATAA
1 ATAATATATAGATATAAATA-ATATACAAATATATATATAA
*
1066877 ATAATATATAG-TCTAAATAATATACAAATATATATATAGA
1 ATAATATATAGATATAAATAATATACAAATATATATATA-A
1066917 TATAA-ATTATAGATATAAA
1 -ATAATA-TATAGATATAAA
1066936 ATAAAAATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
39 23 0.46
40 13 0.26
41 9 0.18
42 5 0.10
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (40 bp):
ATAATATATAGATATAAATAATATACAAATATATATATAA
Found at i:1067604 original size:16 final size:16
Alignment explanation
Indices: 1067583--1067616 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1067573 AGTGTTACTC
1067583 TTTTAATAATAAAATA
1 TTTTAATAATAAAATA
**
1067599 TTTTAATTTTAAAATA
1 TTTTAATAATAAAATA
1067615 TT
1 TT
1067617 AATATATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTAATAATAAAATA
Found at i:1069806 original size:16 final size:17
Alignment explanation
Indices: 1069786--1069832 Score: 71
Period size: 15 Copynumber: 2.9 Consensus size: 17
1069776 AAGTAAAATG
1069786 TTTAAATTTTAAAAAAA
1 TTTAAATTTTAAAAAAA
1069803 -TTAAA-TTTAAAAAAA
1 TTTAAATTTTAAAAAAA
*
1069818 TTTAAATTTGAAAAA
1 TTTAAATTTTAAAAA
1069833 TTTCAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 10 0.37
16 10 0.37
17 7 0.26
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
TTTAAATTTTAAAAAAA
Found at i:1069813 original size:15 final size:16
Alignment explanation
Indices: 1069786--1069832 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
1069776 AAGTAAAATG
1069786 TTTAAATTTTAAAAAAA
1 TTTAAA-TTTAAAAAAA
1069803 -TTAAATTTAAAAAAA
1 TTTAAATTTAAAAAAA
1069818 TTTAAATTTGAAAAA
1 TTTAAATTT-AAAAA
1069833 TTTCAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.36
16 13 0.46
17 5 0.18
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
TTTAAATTTAAAAAAA
Found at i:1069833 original size:15 final size:15
Alignment explanation
Indices: 1069786--1069840 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
1069776 AAGTAAAATG
1069786 TTTAAATTTTAAAAAA
1 TTTAAA-TTTAAAAAA
*
1069802 ATTAAATTTAAAAAAA
1 TTTAAATTT-AAAAAA
*
1069818 TTTAAATTTGAAAAA
1 TTTAAATTTAAAAAA
1069833 TTTCAAAT
1 TTT-AAAT
1069841 AAAGAAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
15 11 0.32
16 23 0.68
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (15 bp):
TTTAAATTTAAAAAA
Found at i:1070996 original size:16 final size:17
Alignment explanation
Indices: 1070967--1071001 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
1070957 TTTAATGTCA
1070967 AATATCATATATTAAAT
1 AATATCATATATTAAAT
*
1070984 AATATCA-ATATTATAT
1 AATATCATATATTAAAT
1071000 AA
1 AA
1071002 ATTTAAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (17 bp):
AATATCATATATTAAAT
Found at i:1071291 original size:22 final size:23
Alignment explanation
Indices: 1071266--1071320 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
1071256 AATGCAACCT
* *
1071266 TAAAAAATTATAAT-AAATAAAC
1 TAAAAAATTATAATAAAACAAAA
1071288 TAAAAAA--ACTAATAAAACAAAA
1 TAAAAAATTA-TAATAAAACAAAA
1071310 TAAAAAATTAT
1 TAAAAAATTAT
1071321 TGAACTAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
20 1 0.04
21 4 0.15
22 20 0.74
23 1 0.04
24 1 0.04
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (23 bp):
TAAAAAATTATAATAAAACAAAA
Found at i:1071411 original size:16 final size:17
Alignment explanation
Indices: 1071370--1071412 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
1071360 AATGTAAAAA
*
1071370 GTTTTATATATAAATGT
1 GTTTTATTTATAAATGT
*
1071387 GAGTTTATTTATAAAT-T
1 G-TTTTATTTATAAATGT
1071404 GTTTTATTT
1 GTTTTATTT
1071413 TAATAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 7 0.32
17 3 0.14
18 12 0.55
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (17 bp):
GTTTTATTTATAAATGT
Found at i:1072224 original size:13 final size:13
Alignment explanation
Indices: 1072206--1072231 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1072196 CAATTTTTTG
1072206 TGTATCGATACAT
1 TGTATCGATACAT
1072219 TGTATCGATACAT
1 TGTATCGATACAT
1072232 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1072317 original size:20 final size:20
Alignment explanation
Indices: 1072292--1072364 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1072282 ATCTTTTTTT
1072292 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1072312 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1072333 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1072353 ATGTATCGATAC
1 ATGTATCGATAC
1072365 TTTGAATTGA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1072343 original size:41 final size:42
Alignment explanation
Indices: 1072270--1072364 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
1072260 CTGCCAAGAA
*
1072270 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1072312 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1072353 ATGTATCGATAC
1 ATGTATCGATAC
1072365 TTTGAATTGA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:1074811 original size:13 final size:13
Alignment explanation
Indices: 1074793--1074830 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
1074783 ATAAACACCC
1074793 TGTATCGATACAG
1 TGTATCGATACAG
* *
1074806 TGTATCAATACAT
1 TGTATCGATACAG
1074819 TGTATCGATACA
1 TGTATCGATACA
1074831 AAGAAAAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1074844 original size:20 final size:20
Alignment explanation
Indices: 1074819--1074895 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
1074809 ATCAATACAT
1074819 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
* *
1074839 TGTATCGATACATAGAATTTCCAGA
1 TGTATCGATACAAAGAA-----AAA
* *
1074864 TGTATCGATACACAGAAACA
1 TGTATCGATACAAAGAAAAA
1074884 TGTATCGATACA
1 TGTATCGATACA
1074896 TTTTGGACAT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
20 30 0.62
25 18 0.38
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:1076930 original size:15 final size:15
Alignment explanation
Indices: 1076910--1076940 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1076900 ATTTCGTTTG
*
1076910 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1076925 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1076940 G
1 G
1076941 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1078773 original size:21 final size:21
Alignment explanation
Indices: 1078744--1078788 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1078734 AAGTTTTCAT
*
1078744 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1078764 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1078786 TTT
1 TTT
1078789 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1081021 original size:13 final size:13
Alignment explanation
Indices: 1081003--1081028 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1080993 CAATTTTTTA
1081003 TGTATCGATACAT
1 TGTATCGATACAT
1081016 TGTATCGATACAT
1 TGTATCGATACAT
1081029 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1081114 original size:20 final size:20
Alignment explanation
Indices: 1081089--1081161 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1081079 ATCTTTTTTT
1081089 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1081109 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1081130 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1081150 ATGTATCGATAC
1 ATGTATCGATAC
1081162 TTTGAATTGA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1081140 original size:41 final size:42
Alignment explanation
Indices: 1081067--1081161 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
1081057 CTGCCAAGAA
*
1081067 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1081109 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1081150 ATGTATCGATAC
1 ATGTATCGATAC
1081162 TTTGAATTGA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:1084402 original size:23 final size:25
Alignment explanation
Indices: 1084356--1084402 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
1084346 TTAGATAAGA
1084356 ACCTCACAATCTCTTCAAGAATTAT
1 ACCTCACAATCTCTTCAAGAATTAT
1084381 ACCTCA-AAT-TCTT-AAGAGATTA
1 ACCTCACAATCTCTTCAAGA-ATTA
1084403 CAAAGCAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 4 0.19
23 8 0.38
24 3 0.14
25 6 0.29
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.32
Consensus pattern (25 bp):
ACCTCACAATCTCTTCAAGAATTAT
Found at i:1084847 original size:20 final size:19
Alignment explanation
Indices: 1084821--1084912 Score: 78
Period size: 20 Copynumber: 4.7 Consensus size: 19
1084811 CTGCCAGTTT
* *
1084821 CATGTATTGATACAATTGAG
1 CATGTATCGATACAA-TGAA
*
1084841 TATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
1084860 CATGTATCGATACAAAGTATA
1 CATGTATCGATACAATG-A-A
* *
1084881 -ATGTATCGATATATCTGAA
1 CATGTATCGATACA-ATGAA
*
1084900 TATGTATCGATAC
1 CATGTATCGATAC
1084913 TTTCTAGGGT
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
19 19 0.32
20 38 0.64
21 2 0.03
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1085465 original size:17 final size:17
Alignment explanation
Indices: 1085443--1085477 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1085433 CTTAATAAAA
1085443 TAATTAAAGCTCTCTTT
1 TAATTAAAGCTCTCTTT
1085460 TAATTAAAGCTCTCTTT
1 TAATTAAAGCTCTCTTT
1085477 T
1 T
1085478 GTTAAAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.49
Consensus pattern (17 bp):
TAATTAAAGCTCTCTTT
Found at i:1091343 original size:164 final size:164
Alignment explanation
Indices: 1091072--1091386 Score: 621
Period size: 164 Copynumber: 1.9 Consensus size: 164
1091062 TTTTAGAATT
*
1091072 ACATGTGTGAAATGTGTGACCACGTTTATGGCATAATGAACACATGTATGAGGCATCATATCGTG
1 ACATGTGTGAAATGTGTGACCACGTTTATGGCATAATGAACACATGTACGAGGCATCATATCGTG
1091137 GATTATGCTTGACAAAGAAATTCTTAAATTTTGTTTTTTTCTCAAAAGCATTGTATCCTAAACCA
66 GATTATGCTTGACAAAGAAATTCTTAAATTTTGTTTTTTTCTCAAAAGCATTGTATCCTAAACCA
1091202 TCTTTATCAAAAAATACGCTTCACACATGGTCAC
131 TCTTTATCAAAAAATACGCTTCACACATGGTCAC
1091236 ACATGTGTGAAATGTGTGACCACGTTTATGGCATAATGAACACATGTACGAGGCATCATATCGTG
1 ACATGTGTGAAATGTGTGACCACGTTTATGGCATAATGAACACATGTACGAGGCATCATATCGTG
1091301 GATTATGCTTGACAAAGAAATTCTTAAATTTTGTTTTTTTCTCAAAAGCATTGTATCCTAAACCA
66 GATTATGCTTGACAAAGAAATTCTTAAATTTTGTTTTTTTCTCAAAAGCATTGTATCCTAAACCA
1091366 TCTTTATCAAAAAATACGCTT
131 TCTTTATCAAAAAATACGCTT
1091387 TGAGTTTCTA
Statistics
Matches: 150, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
164 150 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (164 bp):
ACATGTGTGAAATGTGTGACCACGTTTATGGCATAATGAACACATGTACGAGGCATCATATCGTG
GATTATGCTTGACAAAGAAATTCTTAAATTTTGTTTTTTTCTCAAAAGCATTGTATCCTAAACCA
TCTTTATCAAAAAATACGCTTCACACATGGTCAC
Found at i:1096278 original size:20 final size:20
Alignment explanation
Indices: 1096253--1096307 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
1096243 AAAAAAACAG
*
1096253 AATGTATAGATACATTGAAA
1 AATGTATCGATACATTGAAA
*
1096273 AATGTATCGACACATTGAAA
1 AATGTATCGATACATTGAAA
1096293 AATGTATCGATACAT
1 AATGTATCGATACAT
1096308 CTGGGTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:1101725 original size:52 final size:52
Alignment explanation
Indices: 1101640--1101764 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
1101630 ATATGAAAAG
* *
1101640 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
1101692 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
1101744 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
1101765 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:1101777 original size:52 final size:51
Alignment explanation
Indices: 1101640--1101784 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
1101630 ATATGAAAAG
*
1101640 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
1101692 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
1101744 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1101785 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:1101791 original size:13 final size:13
Alignment explanation
Indices: 1101773--1101797 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1101763 CAAAGATCAG
1101773 TGTATCGATACAA
1 TGTATCGATACAA
1101786 TGTATCGATACA
1 TGTATCGATACA
1101798 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1101879 original size:33 final size:33
Alignment explanation
Indices: 1101837--1101906 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1101827 GGCAGTAGCT
1101837 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
1101870 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
1101903 TACA
1 TACA
1101907 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:1101880 original size:13 final size:13
Alignment explanation
Indices: 1101862--1101886 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1101852 CAAAAAAATA
1101862 TGTATCGATACAT
1 TGTATCGATACAT
1101875 TGTATCGATACA
1 TGTATCGATACA
1101887 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1102217 original size:2 final size:2
Alignment explanation
Indices: 1102210--1102243 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1102200 AGTGTCTACA
1102210 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1102244 TGTTAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1105249 original size:16 final size:15
Alignment explanation
Indices: 1105211--1105254 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
1105201 TGCATGGTTT
1105211 TTATTTTAATATTAA
1 TTATTTTAATATTAA
* *
1105226 TATGTTTTGATATTAAA
1 T-TATTTTAATATT-AA
1105243 TTATTTTAATAT
1 TTATTTTAATAT
1105255 ATTTTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 1 0.04
16 19 0.83
17 3 0.13
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (15 bp):
TTATTTTAATATTAA
Found at i:1105462 original size:19 final size:20
Alignment explanation
Indices: 1105440--1105477 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
1105430 CAAAAAAATA
1105440 AAATAAATA-TAAAATATTT
1 AAATAAATAGTAAAATATTT
* *
1105459 AAATATATAGTAAATTATT
1 AAATAAATAGTAAAATATT
1105478 ATTAATTGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (20 bp):
AAATAAATAGTAAAATATTT
Found at i:1106038 original size:19 final size:19
Alignment explanation
Indices: 1105997--1106043 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
1105987 GAAAAACTAT
* *
1105997 ATAATTAATATGTAATATT
1 ATAATTAATATGCAATATC
*
1106016 ATAATTAATATGCAGTATC
1 ATAATTAATATGCAATATC
*
1106035 ATAAATAAT
1 ATAATTAAT
1106044 CAAATTTCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.40
Consensus pattern (19 bp):
ATAATTAATATGCAATATC
Done.