Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold98
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: 1546936
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 25 characters in sequence are not A, C, G, or T
File 1 of 13
Found at i:1234 original size:19 final size:20
Alignment explanation
Indices: 1205--1258 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
1195 ATTTGCCTGC
1205 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
*
1225 ATGT-TCGATACATTTAATA
1 ATGTATCGATACATTGAATA
*
1244 ATATATCGATACATT
1 ATGTATCGATACATT
1259 TCCTTGGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:3934 original size:93 final size:92
Alignment explanation
Indices: 3808--4007 Score: 231
Period size: 93 Copynumber: 2.2 Consensus size: 92
3798 CTTTTAACTG
* * * * *
3808 TGATATTTACAAAACAATTAACTTTGCTTTTTTTCTACCAAAAGAAATTTAATTCTTAAATATAA
1 TGATATTTAC-AATCAACTAACTTTGCTTTTTTTCTACCAAAAGAAATCTAATTCTCAAATACAA
*
3873 -TCTATGCATTAGTCTAATCCTTGTAGTC
65 TTC-ATGCATTAGTCTAATCCTTATAGTC
* * * * *
3901 TGATATTTACAATCAACTAATTTTTCTTTTTTTTCTACCGAAAGGAATCTAATTCTCAGATACAA
1 TGATATTTACAATCAACTAACTTTGC-TTTTTTTCTACCAAAAGAAATCTAATTCTCAAATACAA
* * *
3966 TTCATGCATTAGTTTAATCTTTATAGTT
65 TTCATGCATTAGTCTAATCCTTATAGTC
*
3994 TGACATTTACAATC
1 TGATATTTACAATC
4008 CATGTATTAG
Statistics
Matches: 90, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
92 12 0.13
93 76 0.84
94 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (92 bp):
TGATATTTACAATCAACTAACTTTGCTTTTTTTCTACCAAAAGAAATCTAATTCTCAAATACAAT
TCATGCATTAGTCTAATCCTTATAGTC
Found at i:4085 original size:66 final size:67
Alignment explanation
Indices: 4013--4140 Score: 179
Period size: 67 Copynumber: 1.9 Consensus size: 67
4003 CAATCCATGT
* * * * *
4013 ATTAGTCTTATCAA-TTTTTTCATATTAGAAAGAAT-TTGATTCTCATCAAGAATCTATGCATCA
1 ATTAGTCTTATCAACTTCTTTCATATCAGAAAGAATCTCG-TTCCCATCAACAATCTATGCATCA
4076 TAC
65 TAC
*
4079 ATTAGTCTTATCAACTTCTTTCATATCAGAAGGAATCTCGTTCCCATCAACAATCTATGCAT
1 ATTAGTCTTATCAACTTCTTTCATATCAGAAAGAATCTCGTTCCCATCAACAATCTATGCAT
4141 TAATCACATT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
66 14 0.26
67 38 0.70
68 2 0.04
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (67 bp):
ATTAGTCTTATCAACTTCTTTCATATCAGAAAGAATCTCGTTCCCATCAACAATCTATGCATCAT
AC
Found at i:4404 original size:39 final size:39
Alignment explanation
Indices: 4356--4430 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
4346 CATCTGACAA
* * * * *
4356 ATTCTAATAAAAAATTTATATATTAGTCATATCTTTTAG
1 ATTCCAATAAAAAATCTATACATTACTAATATCTTTTAG
*
4395 ATTCCAATAAATAATCTATACATTACTAATATCTTT
1 ATTCCAATAAAAAATCTATACATTACTAATATCTTT
4431 AGAATTTACT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (39 bp):
ATTCCAATAAAAAATCTATACATTACTAATATCTTTTAG
Found at i:4441 original size:19 final size:20
Alignment explanation
Indices: 4417--4455 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
4407 AATCTATACA
4417 TTACTAATATCTTT-AGAAT
1 TTACTAATATCTTTCAGAAT
4436 TTACTAATATCTTTCAGAAT
1 TTACTAATATCTTTCAGAAT
4456 CCAATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (20 bp):
TTACTAATATCTTTCAGAAT
Found at i:5551 original size:26 final size:25
Alignment explanation
Indices: 5520--5568 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
5510 ATTTCTAAAA
5520 TTTTATTTATGATTATTAATTTTTAT
1 TTTTATTTAT-ATTATTAATTTTTAT
* *
5546 TTTTATTTATTTTATTTATTTTT
1 TTTTATTTATATTATTAATTTTT
5569 GAAAATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (25 bp):
TTTTATTTATATTATTAATTTTTAT
Found at i:7130 original size:79 final size:79
Alignment explanation
Indices: 6995--7141 Score: 181
Period size: 79 Copynumber: 1.9 Consensus size: 79
6985 GATAGTAACG
* * * *
6995 GGGTTAGAGTATCCCCGATTATAGAAAATTGATGTTTTAAAAATACAATCGAGGTTGGAGTACCC
1 GGGTTAGAGTATCCCCGATTATAGAAAATCGATATTTTAAAAATACAACCGAGGTTGAAGTACCC
7060 CCGTGAAAATAATA
66 CCGTGAAAATAATA
* * * * *
7074 GGGTTGGAGTATCCCCGATTAT-GAGAAATCGATATTTTAGAAATA-AGGCCGGGGTTGAAGTAT
1 GGGTTAGAGTATCCCCGATTATAGA-AAATCGATATTTTAAAAATACA-ACCGAGGTTGAAGTAC
7137 CCCCG
64 CCCCG
7142 ATTTTGAGAA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
78 3 0.05
79 54 0.95
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
GGGTTAGAGTATCCCCGATTATAGAAAATCGATATTTTAAAAATACAACCGAGGTTGAAGTACCC
CCGTGAAAATAATA
Found at i:7139 original size:51 final size:51
Alignment explanation
Indices: 7074--7240 Score: 203
Period size: 51 Copynumber: 3.3 Consensus size: 51
7064 GAAAATAATA
*
7074 GGGTTGGAGTATCCCCGATTATGAGAAATCGATATTTTAGAAATAAGGCCG
1 GGGTTGGAGTATCCCCGATTATGAGAAATCGATATTTTAGAAATAAAGCCG
* * * * *
7125 GGGTTGAAGTATCCCCGATTTTGAGAAATCAACATTTTGGAAATAAAGCCG
1 GGGTTGGAGTATCCCCGATTATGAGAAATCGATATTTTAGAAATAAAGCCG
* * * * **
7176 GGGTTGGAGTATCCCCGATGA--AAAAACCGATGTTTTAGAAATAAAATCG
1 GGGTTGGAGTATCCCCGATTATGAGAAATCGATATTTTAGAAATAAAGCCG
*
7225 GGATTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
7241 TTGGAAGTAA
Statistics
Matches: 98, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
49 35 0.36
51 63 0.64
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTATGAGAAATCGATATTTTAGAAATAAAGCCG
Found at i:7312 original size:79 final size:79
Alignment explanation
Indices: 7174--7554 Score: 434
Period size: 79 Copynumber: 4.9 Consensus size: 79
7164 GAAATAAAGC
* *** *
7174 CGGGGTTGGAGTATCCCCGATGA--AAAAACCGATGTTTTAGAAATAAAATCGGGATTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAATCGGGATTGGAGTAT
* *
7237 CCCCTTGGAAGTAA
66 CCCCTCGGAAATAA
* *
7251 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAATAGAGG-TTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAATCG-GGATTGGAGTA
7315 TCCCCTCGGAAATAA
65 TCCCCTCGGAAATAA
* *
7330 CGGGGTTGGAGTATCCCCG---ATGAAAAATTGATGTTTTAGAAATAAAATCGGGATTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAATCGGGATTGGAGTAT
* *
7392 CCCCTTGGAAGTAA
66 CCCCTCGGAAATAA
* * * *
7406 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAATCGGGATTGGAGTAT
* **
7471 CCTCTCAAAAATAA
66 CCCCTCGGAAATAA
* * * ** * * *
7485 CGGGGTTGGAGTATCCCCGATGAAAGGAAAATTGGTGTTTT-GAAAATAAAACCGGGGTTGGAGT
1 CGGGGTTGGAGTATCCCCGAT-TATGAAAAATTAATATTTTAG-AAATAAAATCGGGATTGGAGT
7549 ATCCCC
64 ATCCCC
7555 GATTGTGGAA
Statistics
Matches: 260, Mismatches: 35, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
75 2 0.01
76 67 0.26
77 22 0.08
79 130 0.50
80 39 0.15
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAATCGGGATTGGAGTAT
CCCCTCGGAAATAA
Found at i:7317 original size:179 final size:181
Alignment explanation
Indices: 6993--7319 Score: 444
Period size: 179 Copynumber: 1.8 Consensus size: 181
6983 AAGATAGTAA
* ** *
6993 CGGGGTTAGAGTATCCCCGATTATAGAAAATTGATGTTTTAAAAATACAATCGAGGTTGGAGTAC
1 CGGGGTTAGAGTATCCCCGATGATAGAAAACCGATGTTTTAAAAATAAAATCGAGGTTGGAGTAC
* * **
7058 CCCCGTGAAAATAATAGGGTTGGAGTATCCCCGATTATGAGAAATCGATATTTTAGAAATAAGGC
66 CCCCGTGAAAATAACAGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAAC
* *
7123 CGGGGTTGAAGTATCCCCGATTTTGAGAAATCAACATTTTGGAAATAAAGC
131 AGAGGTTGAAGTATCCCCGATTTTGAGAAATCAACATTTTGGAAATAAAGC
* *
7174 CGGGGTTGGAGTATCCCCGATGA-A-AAAACCGATGTTTTAGAAATAAAATCG-GGATTGGAGTA
1 CGGGGTTAGAGTATCCCCGATGATAGAAAACCGATGTTTTAAAAATAAAATCGAGG-TTGGAGTA
* * * * * *
7236 TCCCCTTGGAAGTAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAA
65 CCCCCGTGAAAATAACAGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAA
* *
7301 TAGAGGTTGGAGTATCCCC
130 CAGAGGTTGAAGTATCCCC
7320 TCGGAAATAA
Statistics
Matches: 125, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
178 2 0.02
179 101 0.81
180 1 0.01
181 21 0.17
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (181 bp):
CGGGGTTAGAGTATCCCCGATGATAGAAAACCGATGTTTTAAAAATAAAATCGAGGTTGGAGTAC
CCCCGTGAAAATAACAGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAAC
AGAGGTTGAAGTATCCCCGATTTTGAGAAATCAACATTTTGGAAATAAAGC
Found at i:7380 original size:155 final size:156
Alignment explanation
Indices: 7174--7554 Score: 604
Period size: 155 Copynumber: 2.4 Consensus size: 156
7164 GAAATAAAGC
**
7174 CGGGGTTGGAGTATCCCCGATGAAAAAACCGATGTTTTAGAAATAAAATCGGGATTGGAGTATCC
1 CGGGGTTGGAGTATCCCCGATGAAAAAATTGATGTTTTAGAAATAAAATCGGGATTGGAGTATCC
*
7239 CCTTGGAAGTAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAATAG
66 CCTTGGAAGTAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACAG
* **
7304 AGGTTGGAGTATCCCCTCGGAAATAA
131 AGGTTAGAGTATCCCCTCAAAAATAA
7330 CGGGGTTGGAGTATCCCCGATG-AAAAATTGATGTTTTAGAAATAAAATCGGGATTGGAGTATCC
1 CGGGGTTGGAGTATCCCCGATGAAAAAATTGATGTTTTAGAAATAAAATCGGGATTGGAGTATCC
*
7394 CCTTGGAAGTAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCG
66 CCTTGGAAGTAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACAG
* *
7459 GGGTTAGAGTATCCTCTCAAAAATAA
131 AGGTTAGAGTATCCCCTCAAAAATAA
* * *
7485 CGGGGTTGGAGTATCCCCGATGAAAGGAAAATTGGTGTTTT-GAAAATAAAACCGGGGTTGGAGT
1 CGGGGTTGGAGTATCCCCGATG-AA--AAAATTGATGTTTTAG-AAATAAAATCGGGATTGGAGT
7549 ATCCCC
62 ATCCCC
7555 GATTGTGGAA
Statistics
Matches: 208, Mismatches: 12, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
155 146 0.70
156 22 0.11
157 1 0.00
158 1 0.00
159 38 0.18
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (156 bp):
CGGGGTTGGAGTATCCCCGATGAAAAAATTGATGTTTTAGAAATAAAATCGGGATTGGAGTATCC
CCTTGGAAGTAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACAG
AGGTTAGAGTATCCCCTCAAAAATAA
Found at i:7553 original size:52 final size:51
Alignment explanation
Indices: 7485--7656 Score: 213
Period size: 51 Copynumber: 3.4 Consensus size: 51
7475 TCAAAAATAA
* *
7485 CGGGGTTGGAGTATCCCCGATGAAAGGAAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATG-ATGGAAAATTGGTGTTTTGAAAATAAAGC
* *
7537 CGGGGTTGGAGTATCCCCGATTG-TGGAAAATTAGTGTTTT-AGAGATAAAGC
1 CGGGGTTGGAGTATCCCCGA-TGATGGAAAATTGGTGTTTTGA-AAATAAAGC
* * * * *
7588 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTGGAAATAAAGC
1 CGGGGTTGGAGTATCCCCGATGATGGAAAATTGGTGTTTTGAAAATAAAGC
*
7639 CAGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
7657 TCAGAGGCAA
Statistics
Matches: 104, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
50 2 0.02
51 80 0.77
52 20 0.19
53 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.27
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATGATGGAAAATTGGTGTTTTGAAAATAAAGC
Found at i:10204 original size:13 final size:13
Alignment explanation
Indices: 10186--10211 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10176 ACAAAGATCG
10186 ATGTATCGATACA
1 ATGTATCGATACA
10199 ATGTATCGATACA
1 ATGTATCGATACA
10212 TTTCCTTAAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:10222 original size:21 final size:21
Alignment explanation
Indices: 10198--10239 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
10188 GTATCGATAC
10198 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
10219 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
10240 GGCAGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:10288 original size:19 final size:19
Alignment explanation
Indices: 10264--10326 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
10254 AGTGATACAT
*
10264 TGTATCGATACAACACTTA
1 TGTATCAATACAACACTTA
*
10283 TGTATCGAT---ACA--T-
1 TGTATCAATACAACACTTA
10296 TGTATCAATACAACACTTA
1 TGTATCAATACAACACTTA
10315 TGTATCAATACA
1 TGTATCAATACA
10327 TTGTATCAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 8 0.22
14 1 0.03
16 6 0.16
18 1 0.03
19 21 0.57
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (19 bp):
TGTATCAATACAACACTTA
Found at i:10298 original size:32 final size:32
Alignment explanation
Indices: 10257--10358 Score: 168
Period size: 32 Copynumber: 3.2 Consensus size: 32
10247 GCTTCGTAGT
*
10257 GATACATTGTATCGATACAACACTTATGTATC
1 GATACATTGTATCAATACAACACTTATGTATC
10289 GATACATTGTATCAATACAACACTTATGTATC
1 GATACATTGTATCAATACAACACTTATGTATC
* * *
10321 AATACATTGTATCAATACAACATTTTTGTATC
1 GATACATTGTATCAATACAACACTTATGTATC
10353 GATACA
1 GATACA
10359 AATCGTTGAA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (32 bp):
GATACATTGTATCAATACAACACTTATGTATC
Found at i:10301 original size:13 final size:13
Alignment explanation
Indices: 10283--10339 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
10273 ACAACACTTA
*
10283 TGTATCGATACAT
1 TGTATCAATACAT
10296 TGTATCAATACAACACTT
1 TGTATCAAT---ACA--T
10314 ATGTATCAATACAT
1 -TGTATCAATACAT
10328 TGTATCAATACA
1 TGTATCAATACA
10340 ACATTTTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 20 0.54
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.35
Consensus pattern (13 bp):
TGTATCAATACAT
Found at i:10351 original size:19 final size:18
Alignment explanation
Indices: 10295--10359 Score: 59
Period size: 19 Copynumber: 3.8 Consensus size: 18
10285 TATCGATACA
10295 TTGTATCAATACAACACTT
1 TTGTATCAATACAACA-TT
*
10314 ATGTATCAAT---ACA--
1 TTGTATCAATACAACATT
10327 TTGTATCAATACAACATTT
1 TTGTATCAATACAACA-TT
*
10346 TTGTATCGATACAA
1 TTGTATCAATACAA
10360 ATCGTTGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
13 9 0.24
16 6 0.16
19 22 0.59
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (18 bp):
TTGTATCAATACAACATT
Found at i:10439 original size:21 final size:21
Alignment explanation
Indices: 10396--10473 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
10386 GTTGGGACCT
*
10396 TGTATCGATACATTCAAACAAA
1 TGTATCGATACATTC-TACAAA
10418 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
* *
10439 TGTATCAATACATTCTATAAA
1 TGTATCGATACATTCTACAAA
10460 TGTATCGATACATT
1 TGTATCGATACATT
10474 TGGATAAACA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 37 0.71
22 15 0.29
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:11261 original size:20 final size:20
Alignment explanation
Indices: 11238--11276 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11228 TATGTTTAAT
11238 ATGT-ATTCATATAAATTTTC
1 ATGTAATTCAT-TAAATTTTC
*
11258 ATGTAATTTATTAAATTTT
1 ATGTAATTCATTAAATTTT
11277 GGTGTGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (20 bp):
ATGTAATTCATTAAATTTTC
Found at i:11879 original size:21 final size:20
Alignment explanation
Indices: 11840--11891 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
11830 TTTTTAATGC
*
11840 AATAAAATAAAAATTAAATA
1 AATAAAATAAAAATAAAATA
* *
11860 AATAATAATCAAAATAAAATG
1 AATAA-AATAAAAATAAAATA
11881 AATAAATATAA
1 AATAAA-ATAA
11892 CCTTCTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (20 bp):
AATAAAATAAAAATAAAATA
Found at i:13765 original size:14 final size:14
Alignment explanation
Indices: 13746--13789 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
13736 ATTCATAAAA
13746 AAATATATTTTGAG
1 AAATATATTTTGAG
* * *
13760 AAATATTTTTTAAA
1 AAATATATTTTGAG
*
13774 AAATACATTTTGAG
1 AAATATATTTTGAG
13788 AA
1 AA
13790 TTAAAAAAAT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (14 bp):
AAATATATTTTGAG
Found at i:14123 original size:2 final size:2
Alignment explanation
Indices: 14118--14166 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
14108 AATAGAATTA
14118 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
14160 AG AG AG A
1 AG AG AG A
14167 AACTGTCTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16779 original size:22 final size:21
Alignment explanation
Indices: 16754--16800 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
16744 ACATAATAAT
*
16754 ATGACCAATAACATAGTAGTAA
1 ATGACCAATAACAT-GTAGAAA
**
16776 ATGATTAATAACATGTAGAAA
1 ATGACCAATAACATGTAGAAA
16797 ATGA
1 ATGA
16801 TTGTTAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.51, C:0.09, G:0.15, T:0.26
Consensus pattern (21 bp):
ATGACCAATAACATGTAGAAA
Found at i:16798 original size:21 final size:22
Alignment explanation
Indices: 16760--16802 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
16750 TAATATGACC
*
16760 AATAACATAGTAGTAAATGATT
1 AATAACATAGTAGAAAATGATT
16782 AATAACAT-GTAGAAAATGATT
1 AATAACATAGTAGAAAATGATT
16803 GTTAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.30
Consensus pattern (22 bp):
AATAACATAGTAGAAAATGATT
Found at i:21753 original size:21 final size:21
Alignment explanation
Indices: 21697--21753 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
21687 ACATAAGGTA
* *
21697 ATGTATTGATACTTCATGCAT
1 ATGTATCGATACTTTATGCAT
*
21718 ATGTATCGACACTTTATGCAT
1 ATGTATCGATACTTTATGCAT
21739 ATGTATCGATACTTT
1 ATGTATCGATACTTT
21754 GTTCAAAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACTTTATGCAT
Found at i:23650 original size:34 final size:34
Alignment explanation
Indices: 23607--23863 Score: 199
Period size: 34 Copynumber: 7.3 Consensus size: 34
23597 CATTGATGCA
*
23607 TCAATTTTAAATAAAAAACTCCTCCACCAAGGCT
1 TCAACTTTAAATAAAAAACTCCTCCACCAAGGCT
* * * * *
23641 TTAACTTTAAATAAAAAACTTCTTCATCGAGGCT
1 TCAACTTTAAATAAAAAACTCCTCCACCAAGGCT
* * * * *
23675 TCAACTTTAAGATACAAAACTTCTCCATCGAGACT
1 TCAACTTTAA-ATAAAAAACTCCTCCACCAAGGCT
* ** ** *
23710 TCAACTTTAAATAAAAAACTCATTTACTGAGACT
1 TCAACTTTAAATAAAAAACTCCTCCACCAAGGCT
* * * *
23744 TCAACTTTAAATGAAAAACTTCTCTACTAAGGCT
1 TCAACTTTAAATAAAAAACTCCTCCACCAAGGCT
*** ** *
23778 TCAACTTTAAATGCGAAACTCCTCCATTAAGTCT
1 TCAACTTTAAATAAAAAACTCCTCCACCAAGGCT
23812 TCAACTTTCAAAAATGAAGAAGAAACTCCTCCACCAAGGCT
1 TCAACTTT---AAAT--A-AA-AAACTCCTCCACCAAGGCT
23853 TCAACTTTAAA
1 TCAACTTTAAA
23864 AACTACTTCA
Statistics
Matches: 180, Mismatches: 35, Indels: 12
0.79 0.15 0.05
Matches are distributed among these distances:
34 118 0.66
35 31 0.17
37 4 0.02
38 3 0.02
41 24 0.13
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (34 bp):
TCAACTTTAAATAAAAAACTCCTCCACCAAGGCT
Found at i:23684 original size:68 final size:68
Alignment explanation
Indices: 23607--23975 Score: 250
Period size: 68 Copynumber: 5.3 Consensus size: 68
23597 CATTGATGCA
* *
23607 TCAATTTTAAATAAAAAACTCCTCCACCAAGGCTTTAACTTTAAATAAAAAACTTCTTCATCGAG
1 TCAACTTTAAATAAAAAACTCCTCCACCAAGGCTTCAACTTTAAATAAAAAACTTCTTCATCGAG
*
23672 GCT
66 ACT
* * * * * *
23675 TCAACTTTAAGATACAAAACTTCTCCATCGAGACTTCAACTTTAAATAAAAAAC-TCATTTA-CT
1 TCAACTTTAA-ATAAAAAACTCCTCCACCAAGGCTTCAACTTTAAATAAAAAACTTC-TTCATC-
23738 GAGACT
63 GAGACT
* * * * *** * * **
23744 TCAACTTTAAATGAAAAACTTCTCTACTAAGGCTTCAACTTTAAATGCGAAACTCCTCCATTAAG
1 TCAACTTTAAATAAAAAACTCCTCCACCAAGGCTTCAACTTTAAATAAAAAACTTCTTCATCGAG
*
23809 TCT
66 ACT
*
23812 TCAACTTTCAAAAATGAAGAAGAAACTCCTCCACCAAGGCTTCAAC-TT---T-AAAAACTACTT
1 TCAACTTT---AAAT--A-AA-AAACTCCTCCACCAAGGCTTCAACTTTAAATAAAAAACTTCTT
*
23872 CATCTAGACT
59 CATCGAGACT
* * * * *
23882 TCAACTTTAACGATGAAAAAAAACTCCTTCACCGAGGATTCAACTTTAAATGAAAAACTT-TGCC
1 TCAACTTTAA--AT---AAAAAACTCCTCCACCAAGGCTTCAACTTTAAATAAAAAACTTCT-TC
*
23946 ATCGAGGCT
60 ATCGAGACT
* *
23955 TTAACTTTAAAATGAAAAACT
1 TCAACTTT-AAATAAAAAACT
23976 AAATTTGTAA
Statistics
Matches: 233, Mismatches: 46, Indels: 43
0.72 0.14 0.13
Matches are distributed among these distances:
67 2 0.01
68 80 0.34
69 69 0.30
70 24 0.10
71 5 0.02
72 4 0.02
73 22 0.09
74 6 0.03
75 21 0.09
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (68 bp):
TCAACTTTAAATAAAAAACTCCTCCACCAAGGCTTCAACTTTAAATAAAAAACTTCTTCATCGAG
ACT
Found at i:23701 original size:69 final size:67
Alignment explanation
Indices: 23607--23789 Score: 208
Period size: 69 Copynumber: 2.7 Consensus size: 67
23597 CATTGATGCA
* * *
23607 TCAATTTTAAATAAAAAACTCCTCCACCAAGGCTTTAACTTTAAATAAAAAACTTC-TTCA-TCG
1 TCAACTTTAAAT-AAAAACTTCTCCACCAAGGCTTCAACTTTAAATAAAAAAC-TCATTCACT-G
*
23670 AGGCT
63 AGACT
* * * *
23675 TCAACTTTAAGATACAAAACTTCTCCATCGAGACTTCAACTTTAAATAAAAAACTCATTTACTGA
1 TCAACTTTAA-ATA-AAAACTTCTCCACCAAGGCTTCAACTTTAAATAAAAAACTCATTCACTGA
23740 GACT
64 GACT
* *
23744 TCAACTTTAAATGAAAAACTTCTCTACTAAGGCTTCAACTTTAAAT
1 TCAACTTTAAAT-AAAAACTTCTCCACCAAGGCTTCAACTTTAAAT
23790 GCGAAACTCC
Statistics
Matches: 97, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
68 41 0.42
69 55 0.57
70 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (67 bp):
TCAACTTTAAATAAAAACTTCTCCACCAAGGCTTCAACTTTAAATAAAAAACTCATTCACTGAGA
CT
Found at i:23750 original size:103 final size:102
Alignment explanation
Indices: 23607--23863 Score: 248
Period size: 103 Copynumber: 2.4 Consensus size: 102
23597 CATTGATGCA
* * * * *
23607 TCAATTTTAAATAAAAAACTCCTCCACCAAGGCTTTAACTTTAAATAAAAAACTTCT-T-CATCG
1 TCAACTTTAAATAAAAAACTCATCCACCAAGACTTCAACTTTAAATAAAAAACTTCTCTAC-T-A
* *
23670 AGGCTTCAACTTTAAGATACAAAACTTCTCCATCGAGACT
64 AGGCTTCAACTTTAA-ATACAAAACTCCTCCATCAAGACT
** ** *
23710 TCAACTTTAAATAAAAAACTCATTTACTGAGACTTCAACTTTAAATGAAAAACTTCTCTACTAAG
1 TCAACTTTAAATAAAAAACTCATCCACCAAGACTTCAACTTTAAATAAAAAACTTCTCTACTAAG
* * * *
23775 GCTTCAACTTTAAATGCGAAACTCCTCCATTAAGTCT
66 GCTTCAACTTTAAATACAAAACTCCTCCATCAAGACT
* *
23812 TCAACTTTCAAAAATGAAGAAGAAACTCCTCCACCAAGGCTTCAACTTTAAA
1 TCAACTTT---AAAT--A-AA-AAACTCATCCACCAAGACTTCAACTTTAAA
23864 AACTACTTCA
Statistics
Matches: 123, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
102 26 0.21
103 63 0.51
104 2 0.02
105 5 0.04
107 1 0.01
108 2 0.02
109 24 0.20
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (102 bp):
TCAACTTTAAATAAAAAACTCATCCACCAAGACTTCAACTTTAAATAAAAAACTTCTCTACTAAG
GCTTCAACTTTAAATACAAAACTCCTCCATCAAGACT
Found at i:23904 original size:39 final size:37
Alignment explanation
Indices: 23861--23938 Score: 95
Period size: 39 Copynumber: 2.1 Consensus size: 37
23851 CTTCAACTTT
* *
23861 AAAAACTACTTCATCTA-GACTTCAACTTTAACGATGAAA
1 AAAAACTACTTCACCGAGGA-TTCAACTTTAA--ATGAAA
*
23900 AAAAACTCCTTCACCGAGGATTCAACTTTAAATGAAA
1 AAAAACTACTTCACCGAGGATTCAACTTTAAATGAAA
23937 AA
1 AA
23939 CTTTGCCATC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 8 0.23
39 25 0.71
40 2 0.06
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.26
Consensus pattern (37 bp):
AAAAACTACTTCACCGAGGATTCAACTTTAAATGAAA
Found at i:27232 original size:24 final size:23
Alignment explanation
Indices: 27172--27238 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
27162 GAAGGAAGAC
*
27172 GAAAAAA-AGAA--AGAAAGAGA
1 GAAAAAAGAGAATGAGAAAGAAA
27192 GAAAAAAGAGAATGAGAAAGAAA
1 GAAAAAAGAGAATGAGAAAGAAA
27215 GAAAAAAGTAGAGA-GAGAAAGAAA
1 GAAAAAAG-AGA-ATGAGAAAGAAA
27239 AAGAAGGTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
20 7 0.17
21 4 0.10
23 16 0.39
24 13 0.32
25 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (23 bp):
GAAAAAAGAGAATGAGAAAGAAA
Found at i:28567 original size:16 final size:16
Alignment explanation
Indices: 28548--28588 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
28538 CTTATATCTT
28548 AACTAATTCTTAATTA
1 AACTAATTCTTAATTA
*
28564 AACTAATTCTTAATTG
1 AACTAATTCTTAATTA
28580 AACTAATTC
1 AACTAATTC
28589 AATTAACTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.41
Consensus pattern (16 bp):
AACTAATTCTTAATTA
Found at i:30543 original size:152 final size:150
Alignment explanation
Indices: 30063--30539 Score: 355
Period size: 152 Copynumber: 3.1 Consensus size: 150
30053 AAAAAGTATT
* * *
30063 TCAATAACCCTAAAGAACATGAAAAAGATATGTAAAAAGATGAATCC-ATCCTAAATGCACACCT
1 TCAATAACCCTAAAGAACATGAAAAA-ATA--TAGAAGGATGAA-CCTATCCTAAATGCA-TCCT
* ** *
30127 TAT-GTATAAAAGCGACCCGGTGACTACCT-AGTACTCTG-TTTTAAGATAATTACTAAAATGCC
61 T-TGGCATAAAAGCGATTCGGTGACTACCTAAG-ACTC-GATTTTAAGAAAATTAC-AAAATGCC
* * *
30189 TTTAGGATATACCTTT-AATGTGAAAGTATC
122 TTT-GGGTATA-CTTTCAATATGAAAGAATC
* * * * * * * * *
30219 TTAGTAATCGTAAAAAACATGAAAATGAACATAAGAAGG-TGAAACTATCTTAAATGCACTTCTT
1 TCAATAACCCTAAAGAACATGAAAA--AATAT-AGAAGGATGAACCTATCCTAAATGCA-TCCTT
* * * *
30283 TGGCATAAAAGTGATTCGGTGTCTACCTAAAACTCGATTTTATA-AAAAATACCAAAATGCCTCT
62 TGGCATAAAAGCGATTCGGTGACTACCTAAGACTCGATTTTA-AGAAAATTA-CAAAATGCCT-T
** * *
30347 AAGGTATA-TCTTCAACAT-AAAAAAT-
124 TGGGTATACT-TTCAATATGAAAGAATC
** *
30372 TCTGGTAACCCTAAAGGACATGAAAAAATATAGAAGGATGAACCTATCCTAAATGCATGCCTTTG
1 TC-AATAACCCTAAAGAACATGAAAAAATATAGAAGGATGAACCTATCCTAAATGCAT-CCTTTG
* * *
30437 GCATAAAAGCAATTCGGTGGCTACCTAAGACTCGATTTTAGAGAAAATTATCAAAATACCTTTGG
64 GCATAAAAGCGATTCGGTGACTACCTAAGACTCGATTTTA-AGAAAATTA-CAAAATGCCTTTGG
*
30502 GT-TACTTTCAATATGAAAGCATC
127 GTATACTTTCAATATGAAAGAATC
*
30525 TCAATAACCGTAAAG
1 TCAATAACCCTAAAG
30540 GACAAAAAAT
Statistics
Matches: 249, Mismatches: 53, Indels: 42
0.72 0.15 0.12
Matches are distributed among these distances:
151 16 0.06
152 83 0.33
153 19 0.08
154 28 0.11
155 72 0.29
156 28 0.11
157 2 0.01
158 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (150 bp):
TCAATAACCCTAAAGAACATGAAAAAATATAGAAGGATGAACCTATCCTAAATGCATCCTTTGGC
ATAAAAGCGATTCGGTGACTACCTAAGACTCGATTTTAAGAAAATTACAAAATGCCTTTGGGTAT
ACTTTCAATATGAAAGAATC
Found at i:32799 original size:154 final size:152
Alignment explanation
Indices: 32607--33310 Score: 663
Period size: 154 Copynumber: 4.6 Consensus size: 152
32597 TACTTTCAAT
* * * * * *
32607 GTGAAAGTATCTTAGTAACCCAAAAGGACATGAAAATGATAAGCAAAAGGATGAACATATCCTAA
1 GTGAAAGTACCTT-GTAATCCTAAAGGACATGAAAAT-ATTA-TAAAAGGATGAACCTATCCTAA
** * *
32672 ATG-ACA-CTTGTGGCATAAAAGTGACCTAGTGACTACTAGGACTTAGTTCTAAGGAAAATTACT
63 ATGTACACCTT-TGGCATAAAAGCAACCTAGTGACTACTAGGACTTAGTTTTAAGGAAAATTACC
*
32735 AAAATGCTTCTAAGGTATACCTTCGAC
127 AAAATGCTCCTAAGGTATACCTT-GAC
* * *
32762 GTGAAAGTACCTTGTAATCCTAAAGGACATGAAAATGATAAGCAAAAGGATGAACATATCCTAAA
1 GTGAAAGTACCTTGTAATCCTAAAGGACATGAAAAT-ATTA-TAAAAGGATGAACCTATCCTAAA
* * * * * *
32827 TG-ACACATTTGGCATAAAAACAACCTAGTGGCTACTAGGACTCAGTTTTAGGGAAAATTACTAA
64 TGTACACCTTTGGCATAAAAGCAACCTAGTGACTACTAGGACTTAGTTTTAAGGAAAATTACCAA
* ** * *
32891 AATGGTTTTAAGGTATACTTTCGTC
129 AATGCTCCTAAGGTATACCTT-GAC
* * * *
32916 GTGAAAGTACCTAGTAATCCTAAAAGATATGAAAATATTATAAAAAGATGAACCTATCCTAAATG
1 GTGAAAGTACCTTGTAATCCTAAAGGACATGAAAATATTATAAAAGGATGAACCTATCCTAAATG
* * * * * *
32981 TATACCTTTGGCATAAAAGCAACCT-GATGACTACCCAGGATTTGGTTTTAAGAAAAAATACCAA
66 TACACCTTTGGCATAAAAGCAACCTAG-TGACTA-CTAGGACTTAGTTTTAAGGAAAATTACCAA
* * * *
33045 AATGC-CCCAAGGGTATATCATTAAT
129 AATGCTCCTAA-GGTATA-CCTTGAC
* ** ** *
33070 GTTAAAGTACC-TGATAATTTTAAAGGATGTGAAAATATTATAAAAGGATGAACCTATCCTAAAC
1 GTGAAAGTACCTTG-TAATCCTAAAGGACATGAAAATATTATAAAAGGATGAACCTATCCTAAAT
* * * * * *
33134 GTATACCTTTGGTATAAAAGCAACCTGGTGACTACTTAGGATTTGGTTTTAA-GAAAATTACCAG
65 GTACACCTTTGGCATAAAAGCAACCTAGTGACTAC-TAGGACTTAGTTTTAAGGAAAATTACCAA
* *
33198 AATGCTCCTAGGGTATACCATTGAT
129 AATGCTCCTAAGGTATACC-TTGAC
* ** *
33223 GTGAAAGTA-CTCGATAATTGTAAA-GACATGAAAATATTATAAAAGAATGAACCTATCCTAAAT
1 GTGAAAGTACCTTG-TAATCCTAAAGGACATGAAAATATTATAAAAGGATGAACCTATCCTAAAT
* *
33286 GTATACCTTTCGCATAAAA-CAACCT
65 GTACACCTTTGGCATAAAAGCAACCT
33311 GACGACCAAC
Statistics
Matches: 469, Mismatches: 68, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
151 6 0.01
152 77 0.16
153 76 0.16
154 292 0.62
155 18 0.04
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (152 bp):
GTGAAAGTACCTTGTAATCCTAAAGGACATGAAAATATTATAAAAGGATGAACCTATCCTAAATG
TACACCTTTGGCATAAAAGCAACCTAGTGACTACTAGGACTTAGTTTTAAGGAAAATTACCAAAA
TGCTCCTAAGGTATACCTTGAC
Found at i:33360 original size:152 final size:153
Alignment explanation
Indices: 32916--33391 Score: 522
Period size: 154 Copynumber: 3.1 Consensus size: 153
32906 TACTTTCGTC
**
32916 GTGAAAGTACCT-AGTAATCCTAAAAGATATGAAAATATTATAAAA-AGATGAACCTATCCTAAA
1 GTGAAAGTACCTGA-TAATTGT-AAAGATATGAAAATATTATAAAAGA-ATGAACCTATCCTAAA
* * * *
32979 TGTATACCTTTGGCATAAAAGCAACCTGATGACTACCCAGGATTTGGTTTTAAGAAAAAATACCA
63 TGTATACCTTTGGCATAAAAGCAACCTGATGACCAACTAGGATTTGGTTTTAAGAAAAATTACCA
*** * *
33044 AAATGCCCCAAGGGTATATCATTAAT
128 AAAAATCCCTAGGGTATACCATTAAT
* * * * *
33070 GTTAAAGTACCTGATAATTTTAAAGGATGTGAAAATATTATAAAAGGATGAACCTATCCTAAACG
1 GTGAAAGTACCTGATAATTGTAAA-GATATGAAAATATTATAAAAGAATGAACCTATCCTAAATG
* * *
33135 TATACCTTTGGTATAAAAGCAACCTGGTGA-CTACTTAGGATTTGGTTTTAAG-AAAATTACC--
65 TATACCTTTGGCATAAAAGCAACCTGATGACCAAC-TAGGATTTGGTTTTAAGAAAAATTACCAA
* *
33196 AGAATGCTCCTAGGGTATACCATTGAT
129 AAAAT-C-CCTAGGGTATACCATTAAT
*
33223 GTGAAAGTA-CTCGATAATTGTAAAGACATGAAAATATTATAAAAGAATGAACCTATCCTAAATG
1 GTGAAAGTACCT-GATAATTGTAAAGATATGAAAATATTATAAAAGAATGAACCTATCCTAAATG
* * * *
33287 TATACCTTTCGCATAAAA-CAACCTGACGACCAACTAGGATTCT-ATTCTAAGAAAAATTACCAA
65 TATACCTTTGGCATAAAAGCAACCTGATGACCAACTAGGATT-TGGTTTTAAGAAAAATTACCAA
* *
33350 AAAATCCCTAGGGTAGACC-TTCAAC
129 AAAATCCCTAGGGTATACCATT-AAT
* *
33375 GTGAATGTACCTAATAA
1 GTGAAAGTACCTGATAA
33392 CCCTAAAAGA
Statistics
Matches: 269, Mismatches: 39, Indels: 30
0.80 0.12 0.09
Matches are distributed among these distances:
151 25 0.09
152 93 0.35
153 50 0.19
154 100 0.37
155 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (153 bp):
GTGAAAGTACCTGATAATTGTAAAGATATGAAAATATTATAAAAGAATGAACCTATCCTAAATGT
ATACCTTTGGCATAAAAGCAACCTGATGACCAACTAGGATTTGGTTTTAAGAAAAATTACCAAAA
AATCCCTAGGGTATACCATTAAT
Found at i:37132 original size:13 final size:13
Alignment explanation
Indices: 37114--37139 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37104 TACAGCAAGT
37114 ATGTATCGATACA
1 ATGTATCGATACA
37127 ATGTATCGATACA
1 ATGTATCGATACA
37140 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:39391 original size:21 final size:21
Alignment explanation
Indices: 39358--39402 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
39348 TTGCAAGTTG
*
39358 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
39380 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
39400 AAA
1 AAA
39403 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:41223 original size:15 final size:15
Alignment explanation
Indices: 41203--41233 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
41193 TAAAAATGTC
*
41203 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
41218 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
41233 C
1 C
41234 CAAACGAAAT
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:43325 original size:20 final size:20
Alignment explanation
Indices: 43246--43325 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
43236 AATGTCCAAA
*
43246 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
43266 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
43291 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
43311 TTGTATCGATACATT
1 ATGTATCGATACATT
43326 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:43329 original size:13 final size:13
Alignment explanation
Indices: 43311--43349 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
43301 ACATTTTTCT
43311 TTGTATCGATACA
1 TTGTATCGATACA
43324 TTGTATCGATACA
1 TTGTATCGATACA
*
43337 CTGTATCGATACA
1 TTGTATCGATACA
43350 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:43494 original size:21 final size:21
Alignment explanation
Indices: 43470--43516 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
43460 AAATCTTTTG
43470 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
43491 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
43511 CAAAAT
1 CAAAAT
43517 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:43513 original size:20 final size:19
Alignment explanation
Indices: 43472--43514 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
43462 ATCTTTTGCA
43472 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
43492 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
43512 AAA
1 AAA
43515 ATCAGCATCA
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:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:45864 original size:13 final size:13
Alignment explanation
Indices: 45846--45871 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45836 TACAGCAAGT
45846 ATGTATCGATACA
1 ATGTATCGATACA
45859 ATGTATCGATACA
1 ATGTATCGATACA
45872 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:46873 original size:41 final size:40
Alignment explanation
Indices: 46819--46972 Score: 132
Period size: 41 Copynumber: 3.8 Consensus size: 40
46809 ACCAGTGTGG
* * *
46819 AACCTATAGAGTCAACAAGTTAAAGGGGTTAGCCAAGGCAA
1 AACCAATAAAGTCAACAAGTTAAAGGGGTT-GCCAAGGCGA
* * *
46860 AACCAATAAAGTCAACAAATT--AGGAAGGTTGACTAAGGTGA
1 AACCAATAAAGTCAACAAGTTAAAGG--GGTTG-CCAAGGCGA
** * * *
46901 AACTGATAAAGTCAAAAAGTTAAAGGGGTTGGGCAAGACGA
1 AACCAATAAAGTCAACAAGTTAAAGGGGTT-GCCAAGGCGA
* *
46942 AACCAATAAAGCCAACAAGTTAGAGGGGTTG
1 AACCAATAAAGTCAACAAGTTAAAGGGGTTG
46973 ACCAGGTGAA
Statistics
Matches: 88, Mismatches: 19, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
39 3 0.03
40 2 0.02
41 79 0.90
42 1 0.01
43 3 0.03
ACGTcount: A:0.44, C:0.14, G:0.25, T:0.18
Consensus pattern (40 bp):
AACCAATAAAGTCAACAAGTTAAAGGGGTTGCCAAGGCGA
Found at i:47009 original size:82 final size:82
Alignment explanation
Indices: 46828--46993 Score: 212
Period size: 82 Copynumber: 2.0 Consensus size: 82
46818 GAACCTATAG
* * * *
46828 AGTCAACAAGTTAAAGGGGTTAGCCAAGGCAAAACCAATAAAGTCAACAAATTAGGAAGGTTGAC
1 AGTCAAAAAGTTAAAGGGGTTGGCCAAGACAAAACCAATAAAGCCAACAAATTAGGAAGGTTGAC
46893 TAAGGTGAAACTGATAA
66 TAAGGTGAAACTGATAA
* * * *
46910 AGTCAAAAAGTTAAAGGGGTTGGGCAAGACGAAACCAATAAAGCCAACAAGTTA-GAGGGGTTGA
1 AGTCAAAAAGTTAAAGGGGTTGGCCAAGACAAAACCAATAAAGCCAACAAATTAGGA-AGGTTGA
*
46974 C-CAGGTGAAA-TAGATAA
65 CTAAGGTGAAACT-GATAA
46991 AGT
1 AGT
46994 TAACCAATTA
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
80 1 0.01
81 18 0.25
82 54 0.74
ACGTcount: A:0.44, C:0.13, G:0.26, T:0.17
Consensus pattern (82 bp):
AGTCAAAAAGTTAAAGGGGTTGGCCAAGACAAAACCAATAAAGCCAACAAATTAGGAAGGTTGAC
TAAGGTGAAACTGATAA
Found at i:47032 original size:81 final size:81
Alignment explanation
Indices: 46939--47608 Score: 347
Period size: 82 Copynumber: 8.2 Consensus size: 81
46929 TTGGGCAAGA
* * * *
46939 CGAAACCAATAAAGCCAACAAGTTAGAGGGGTTGACCAGGTGAAATAGATAAAGTTAACCAATTA
1 CGAAACCGATAAAGCCAACAAGTTAGAGGGGTTGACCAGGCGAAACAGATAAAGTCAACCAATTA
* *
47004 GAAGGGTTGGCCAGGG
66 GAAGGGTTAGCTAGGG
* * *** * * * ** *
47020 TGAAACCGATAAAGCTAATGGGTTAAAAGGGTTGACTAGG-GCAATATTGATAAAGTCAATCAAT
1 CGAAACCGATAAAGCCAACAAGTTAGAGGGGTTGACCAGGCG-AA-ACAGATAAAGTCAACCAAT
* *
47084 TA-AGGGGTCAGCTAGGG
64 TAGAAGGGTTAGCTAGGG
** * * * * *
47101 CGAAAATGATAAAACCAA-AGGTTAGAGTGGTTGACCAGGGCGAAACCGATAAAGTGAACCAATT
1 CGAAACCGATAAAGCCAACAAGTTAGAGGGGTTGACCA-GGCGAAACAGATAAAGTCAACCAATT
* * * * *
47165 GGAAGGCTTGGCGAAGG
65 AGAAGGGTTAGCTAGGG
** * ** *
47182 CGAAATAGATAAAGCCAACAAGTTAGAGGGGTTAATTAGG-GCAATACCA-ATCAAGTCAACCAA
1 CGAAACCGATAAAGCCAACAAGTTAGAGGGGTTGACCAGGCG-AA-A-CAGATAAAGTCAACCAA
* * *
47245 TTAGAGGGGTTAGCCATGG
63 TTAGAAGGGTTAGCTAGGG
* * * * * * * *
47264 CGAAATCGACAAAGCTAA-TAGATTTGAGAGGTTGACTAAGGCAAAATCA-ATAAAGTCAACCAA
1 CGAAACCGATAAAGCCAACAAG-TTAGAGGGGTTGAC-CAGGCGAAA-CAGATAAAGTCAACCAA
47327 TTA-AAGGGGTTAGCTAGGG
63 TTAGAA-GGGTTAGCTAGGG
* ** * * * * * *
47346 CAAAATTGATAAAGCCATC-AGATTTGAAGGGTTAACCAAGACGAAACCGATAAAGTCAACCAAT
1 CGAAACCGATAAAGCCAACAAG-TTAGAGGGGTTGACC-AGGCGAAACAGATAAAGTCAACCAAT
* *
47410 TAG-ATGGTTAGCTAAGG
64 TAGAAGGGTTAGCTAGGG
* * * * * * * * **
47427 TGAAACTGATAAAGCCAATAGATTTA-AGGCGTTGACTAGGGCGAAACAAATAAAGTTAATAAAT
1 CGAAACCGATAAAGCCAACA-AGTTAGAGGGGTTGACCA-GGCGAAACAGATAAAGTCAACCAAT
* * * *
47491 TCGAAGGGTTGGTTAAGG
64 TAGAAGGGTTAGCTAGGG
* * * * ** * * *
47509 CGAAACCAATAAAGCCAACAAGTCAAAGGCGTT-ACCAGGTAAAACCGATAAAGTCAACTAATTT
1 CGAAACCGATAAAGCCAACAAGTTAGAGGGGTTGACCAGGCGAAACAGATAAAGTCAACCAATTA
* *
47573 GAAGGGTTGGCCAGGG
66 GAAGGGTTAGCTAGGG
* * *
47589 CAAAACTGATAAAACCAACA
1 CGAAACCGATAAAGCCAACA
47609 GGTTTGAAGG
Statistics
Matches: 441, Mismatches: 126, Indels: 45
0.72 0.21 0.07
Matches are distributed among these distances:
80 81 0.18
81 152 0.34
82 201 0.46
83 7 0.02
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (81 bp):
CGAAACCGATAAAGCCAACAAGTTAGAGGGGTTGACCAGGCGAAACAGATAAAGTCAACCAATTA
GAAGGGTTAGCTAGGG
Found at i:47224 original size:162 final size:162
Alignment explanation
Indices: 46960--47612 Score: 369
Period size: 162 Copynumber: 4.0 Consensus size: 162
46950 AAGCCAACAA
* * * * * *
46960 GTTAGAGGGGTTGACCAGGTGAAATAGATAAAGTTAACCAATTAGAAGGGTTGGCCAGGGTGAAA
1 GTTAGAGGGGTTGACCAGGCGAAACAGATAAAGTGAACCAATTAGAAGGCTTGGCCAAGGCGAAA
* * *** * *** *
47025 CCGATAAAGCTAATGGGTTAAAAGGGTTGACTAGGGCAATATTGATAAAGTCAATCAATTA-AGG
66 CAGATAAAGCCAACAAGTTAAAAGGGTTAACTAGGGCAATACCAATAAAGTCAACCAATTAGAGG
*
47089 GGTCAGCTAGGGCGAAAATGATAAAACCAAAG
131 GGTCAGCCAGGGCGAAAATGATAAAACCAAAG
* * * *
47121 GTTAGAGTGGTTGACCAGGGCGAAACCGATAAAGTGAACCAATTGGAAGGCTTGGCGAAGGCGAA
1 GTTAGAGGGGTTGACCA-GGCGAAACAGATAAAGTGAACCAATTAGAAGGCTTGGCCAAGGCGAA
* * * * *
47186 ATAGATAAAGCCAACAAGTTAGAGGGGTTAATTAGGGCAATACCAATCAAGTCAACCAATTAGAG
65 ACAGATAAAGCCAACAAGTTAAAAGGGTTAACTAGGGCAATACCAATAAAGTCAACCAATTAGAG
* * * * *
47251 GGGTTAGCCATGGCG-AAATCGACAAAGCTAATAG
130 GGGTCAGCCAGGGCGAAAAT-GATAAAACCAA-AG
* * * * * * * * * * *
47285 ATTTGAGAGGTTGACTAAGGCAAAATCA-ATAAAGTCAACCAATTA-AAGGGGTTAGCTAGGGCA
1 GTTAGAGGGGTTGAC-CAGGCGAAA-CAGATAAAGTGAACCAATTAGAA-GGCTTGGCCAAGGCG
** * ** * * * *
47348 AAATTGATAAAGCCATC-AGATTTGAAGGGTTAACCAAGACGAA-ACCGATAAAGTCAACCAATT
63 AAACAGATAAAGCCAACAAG-TTAAAAGGGTTAACTAGGGC-AATACCAATAAAGTCAACCAATT
* * * * * * *
47411 AGA-TGGTTAGCTAAGGTGAAACTGATAAAGCCAATAG
126 AGAGGGGTCAGCCAGGGCGAAAATGATAAAACCAA-AG
* * * * * ** * * **
47448 ATTTA-AGGCGTTGACTAGGGCGAAACAAATAAAGTTAATAAATTCGAAGGGTTGGTTAAGGCGA
1 -GTTAGAGGGGTTGACCA-GGCGAAACAGATAAAGTGAACCAATTAGAAGGCTTGGCCAAGGCGA
* * * * * * *
47512 AACCA-ATAAAGCCAACAAG-TCAAAGGCGTT-ACCA-GGTAAAACCGATAAAGTCAACTAATTT
64 AA-CAGATAAAGCCAACAAGTTAAAAGG-GTTAACTAGGGCAATACCAATAAAGTCAACCAATTA
* **
47573 GAAGGGTTGGCCAGGGC-AAAACTGATAAAACCAACAG
127 GAGGGGTCAGCCAGGGCGAAAA-TGATAAAACCAA-AG
47610 GTT
1 GTT
47613 TGAAGGTTGA
Statistics
Matches: 379, Mismatches: 93, Indels: 40
0.74 0.18 0.08
Matches are distributed among these distances:
160 2 0.01
161 43 0.11
162 123 0.32
163 103 0.27
164 104 0.27
165 4 0.01
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.20
Consensus pattern (162 bp):
GTTAGAGGGGTTGACCAGGCGAAACAGATAAAGTGAACCAATTAGAAGGCTTGGCCAAGGCGAAA
CAGATAAAGCCAACAAGTTAAAAGGGTTAACTAGGGCAATACCAATAAAGTCAACCAATTAGAGG
GGTCAGCCAGGGCGAAAATGATAAAACCAAAG
Found at i:47348 original size:41 final size:40
Alignment explanation
Indices: 47190--47351 Score: 112
Period size: 41 Copynumber: 4.0 Consensus size: 40
47180 GGCGAAATAG
* ** * *
47190 ATAAAGCCAACAAGTTAGAGGGGTTAATTAGGGCAATACCA
1 ATAAAGTCAACAA-TTAGAGGGGTTAGCTAGGGCAAAATCA
* * * * *
47231 ATCAAGTCAACCAATTAGAGGGGTTAGCCATGGCGAAATCG
1 ATAAAGTCAA-CAATTAGAGGGGTTAGCTAGGGCAAAATCA
* * * * *
47272 ACAAAG-CTAATAGATTTGAGAGGTT-GACTAAGGCAAAATCA
1 ATAAAGTC-AACA-ATTAGAGGGGTTAG-CTAGGGCAAAATCA
*
47313 ATAAAGTCAACCAATTAAAGGGGTTAGCTAGGGCAAAAT
1 ATAAAGTCAA-CAATTAGAGGGGTTAGCTAGGGCAAAAT
47352 TGATAAAGCC
Statistics
Matches: 89, Mismatches: 25, Indels: 14
0.70 0.20 0.11
Matches are distributed among these distances:
40 3 0.03
41 80 0.90
42 6 0.07
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (40 bp):
ATAAAGTCAACAATTAGAGGGGTTAGCTAGGGCAAAATCA
Found at i:47929 original size:41 final size:42
Alignment explanation
Indices: 47884--48059 Score: 132
Period size: 41 Copynumber: 4.3 Consensus size: 42
47874 AGGTTGAAAA
* * *
47884 GGTTGACCAAGGTGAAACCGATAAAGTCAATCAA-TTAGAGG
1 GGTTGACTAAGGTGAAACCGATAAAGCCAATCAAGTTAAAGG
* * * *
47925 GGTTGGCTAGGGCGAAACCGATAAAGCCAAT-AGATTTAAA-G
1 GGTTGACTAAGGTGAAACCGATAAAGCCAATCA-AGTTAAAGG
* * ** * *
47966 GGTTGACTAAGATAAAACTAATAAAGTCAACCAA-TTAAAGG
1 GGTTGACTAAGGTGAAACCGATAAAGCCAATCAAGTTAAAGG
* *
48007 GGTT-AGCTAAGGTGAAGCC-ATAAAGCCAA-CAAGTTAAAGA
1 GGTTGA-CTAAGGTGAAACCGATAAAGCCAATCAAGTTAAAGG
* *
48047 TGTTGACCAAGGT
1 GGTTGACTAAGGT
48060 AAAATCGGTA
Statistics
Matches: 105, Mismatches: 23, Indels: 15
0.73 0.16 0.10
Matches are distributed among these distances:
39 3 0.03
40 31 0.30
41 66 0.63
42 5 0.05
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.20
Consensus pattern (42 bp):
GGTTGACTAAGGTGAAACCGATAAAGCCAATCAAGTTAAAGG
Found at i:48008 original size:82 final size:82
Alignment explanation
Indices: 47667--48229 Score: 297
Period size: 82 Copynumber: 7.0 Consensus size: 82
47657 TTAGAGGGTT
* * * * * *
47667 AACCAATTAGAGGGGTTAGTTAGGGCAAAATCGATAAAGCCAACAGGTTT-GAGGGTTGACTAGG
1 AACCAATTAGAGGGGTTGGCTAGGGCAAAACCGATAAAGCCAACAGATTTAAAGGGTTGACTAAG
47731 GCAAAACTGATAAAATC
66 GCAAAACTGATAAAATC
* * * * ** * * * * * *
47748 AATCTATTTGAGGGGTTGGCTAGAGCAAAACTAATAAAGCTAATAAATTTAAGGGGTTAACTAGG
1 AACCAATTAGAGGGGTTGGCTAGGGCAAAACCGATAAAGCCAACAGATTTAAAGGGTTGACTAAG
*
47813 GCCAAAA-TTATAAAATC
66 G-CAAAACTGATAAAATC
* * * * * * * * * * *
47830 AACCAATTTGACGAGTTGGCCAAGGCAAAACTGATCAAGCCAACAGGTTGAAAAGGTTGACCAAG
1 AACCAATTAGAGGGGTTGGCTAGGGCAAAACCGATAAAGCCAACAGATTTAAAGGGTTGACTAAG
** * *
47895 GTGAAACCGATAAAGTC
66 GCAAAACTGATAAAATC
* * *
47912 AATCAATTAGAGGGGTTGGCTAGGGCGAAACCGATAAAGCCAATAGATTTAAAGGGTTGACTAAG
1 AACCAATTAGAGGGGTTGGCTAGGGCAAAACCGATAAAGCCAACAGATTTAAAGGGTTGACTAAG
** * *
47977 ATAAAACTAATAAAGTC
66 GCAAAACTGATAAAATC
* * * ** * * * *
47994 AACCAATTAAAGGGGTTAGCTAAGGTGAAGCC-ATAAAGCCAACA-AGTTAAAGATGTTGACCAA
1 AACCAATTAGAGGGGTTGGCTAGGGCAAAACCGATAAAGCCAACAGATTTAAAG-GGTTGACTAA
* * * *
48057 GGTAAAA-TCGGTAAATTT
65 GGCAAAACT-GATAAAATC
* * * * ** ** * * * *
48075 AACAAATTAGA-GGGTTAGCTAGAGCGAAACTAAT-AAGCC-ATTGAGTTAGAAGGGTTAACCAG
1 AACCAATTAGAGGGGTTGGCTAGGGCAAAACCGATAAAGCCAACAGATTTA-AAGGGTTGACTAA
* *
48137 GGAAAAACT-ATAAAGTC
65 GGCAAAACTGATAAAATC
* * * * * * *
48154 AACTAATTAGAGGGATTGGTCAAAGTG--AAACCGATGAAGCCAATAG-GTTAAAGGGTTGAC-A
1 AACCAATTAGAGGGGTTGG-C-TAGGGCAAAACCGATAAAGCCAACAGATTTAAAGGGTTGACTA
*
48215 GGGCAAAACTGATAA
64 AGGCAAAACTGATAA
48230 TGACAACCAT
Statistics
Matches: 367, Mismatches: 100, Indels: 31
0.74 0.20 0.06
Matches are distributed among these distances:
79 26 0.07
80 70 0.19
81 95 0.26
82 171 0.47
83 5 0.01
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.21
Consensus pattern (82 bp):
AACCAATTAGAGGGGTTGGCTAGGGCAAAACCGATAAAGCCAACAGATTTAAAGGGTTGACTAAG
GCAAAACTGATAAAATC
Found at i:49055 original size:152 final size:153
Alignment explanation
Indices: 48755--49096 Score: 449
Period size: 152 Copynumber: 2.2 Consensus size: 153
48745 ATATACGGTA
48755 TCTAAAATTTTTATCAACAGCCAAAACAAAATAATAATAAGCTGAAGGAAAAGAACATGATGGGG
1 TCTAAAATTTTTATCAACAGCCAAAACAAAATAATAATAAGCTGAAGGAAAAGAACATGATGGGG
* * *
48820 AATACGTGGTTTCTAAAATTTTCATTAATAGCCAAAACAAACTAATAACAGCCCCCAAAAAAAGG
66 AATACGTGGTTTCTAAAATTTTCATCAACAGCCAAAACAAACTAATAACAGACCCCAAAAAAAGG
48885 AACATGATAGGGAATATGTTATT
131 AACATGATAGGGAATATGTTATT
* *
48908 TCTAAAATTTTTATCAACAGCCAAAACAAACA-GATAATAGGCTGAAGGAAAAGAACA-GATGGG
1 TCTAAAATTTTTATCAACAGCCAAAACAAA-ATAATAATAAGCTGAAGGAAAAGAACATGATGGG
* * * * * * *** *
48971 GAATATGTGGTTTCTAAAAATTTTTATCAGCAGTC-GAACAAACTGATAAC-GACTTGAAGGAAA
65 GAATACGTGGTTTCT-AAAATTTTCATCAACAGCCAAAACAAACTAATAACAGACCCCAA-AAAA
* *
49034 AGGAACATGATGGGGAATATGTTGTT
128 AGGAACATGATAGGGAATATGTTATT
* * *
49060 TCTAAAATTTTTATCAACGGCCAAAATAAATTAATAA
1 TCTAAAATTTTTATCAACAGCCAAAACAAAATAATAA
49097 CGAGTGATGA
Statistics
Matches: 164, Mismatches: 21, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
151 4 0.02
152 92 0.56
153 67 0.41
154 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.25
Consensus pattern (153 bp):
TCTAAAATTTTTATCAACAGCCAAAACAAAATAATAATAAGCTGAAGGAAAAGAACATGATGGGG
AATACGTGGTTTCTAAAATTTTCATCAACAGCCAAAACAAACTAATAACAGACCCCAAAAAAAGG
AACATGATAGGGAATATGTTATT
Found at i:49097 original size:77 final size:75
Alignment explanation
Indices: 48738--49099 Score: 372
Period size: 76 Copynumber: 4.8 Consensus size: 75
48728 GAAGACAACA
** * * **
48738 ATGGGGAATATACGGTATCTAAAATTTTTATCAACAGCCAAAACAAAATAATAATAAGCTGAAGG
1 ATGGGGAATATGTGGTTTCTAAAATTTTTATCAACAGCCAAAACAAACTAATAACGA-CTGAAGG
48803 AAAAGAACATG
65 AAAAGAACATG
* * * * * **
48814 ATGGGGAATACGTGGTTTCTAAAATTTTCATTAATAGCCAAAACAAACTAATAACAGCCCCCAA-
1 ATGGGGAATATGTGGTTTCTAAAATTTTTATCAACAGCCAAAACAAACTAATAAC-G-ACTGAAG
*
48878 AAAAAGGAACATG
64 GAAAA-GAACATG
* ** * *
48891 ATAGGGAATATGTTATTTCTAAAATTTTTATCAACAGCCAAAACAAAC-AGATAATAGGCTGAAG
1 ATGGGGAATATGTGGTTTCTAAAATTTTTATCAACAGCCAAAACAAACTA-ATAA-CGACTGAAG
48955 GAAAAGAACA-G
64 GAAAAGAACATG
* * * *
48966 ATGGGGAATATGTGGTTTCTAAAAATTTTTATCAGCAGTC-GAACAAACTGATAACGACTTGAAG
1 ATGGGGAATATGTGGTTTCT-AAAATTTTTATCAACAGCCAAAACAAACTAATAACGAC-TGAAG
49030 GAAAAGGAACATG
64 GAAAA-GAACATG
* * * *
49043 ATGGGGAATATGTTGTTTCTAAAATTTTTATCAACGGCCAAAATAAATTAATAACGA
1 ATGGGGAATATGTGGTTTCTAAAATTTTTATCAACAGCCAAAACAAACTAATAACGA
49100 GTGATGATGT
Statistics
Matches: 231, Mismatches: 43, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
74 2 0.01
75 39 0.17
76 97 0.42
77 93 0.40
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.25
Consensus pattern (75 bp):
ATGGGGAATATGTGGTTTCTAAAATTTTTATCAACAGCCAAAACAAACTAATAACGACTGAAGGA
AAAGAACATG
Found at i:49304 original size:60 final size:61
Alignment explanation
Indices: 49205--50073 Score: 393
Period size: 60 Copynumber: 14.5 Consensus size: 61
49195 AAATGGTTTG
* * * * * * *
49205 GATAAAACCAGAAACCTAAACAATAACATA-GGCATAACCAAGACTTAATGAAATCGCTTA
1 GATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAACGAAATGGCCTA
* * * *
49265 GATAAAACCAAAAACCT-AACAATGACTTAGGACAAAACCAAAACTTAACAAAAT--CACTT
1 GATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAACGAAATGGC-CTA
* * * * * * * *
49324 GAATAAAACTAGAAACCTAAATAATGACTTA-GGTAAAACCGAGACTCAACAAAATGGCCTG
1 G-ATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAACGAAATGGCCTA
* ** * * * * * ** *
49385 GATGAAACCTGAAACCTAAACAATAACTT-GGGCAAAACTAAGAGTCAATGAAATGATCTG
1 GATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAACGAAATGGCCTA
* * * ** * *
49445 GATAAAATCAAAAACCTAAACAAAGA-TTTGGGTGAAACCAAGATTTAAGGAAATGGCCTA
1 GATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAACGAAATGGCCTA
* * ** *
49505 GATAAAATCAAAATCCTAAACAATGACTT-GGGCAAAATAAAGACTTAAAGAAATGGCCTA
1 GATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAACGAAATGGCCTA
** * * * * * * * * * *
49565 GATAAAATTAGAAACCTAAATAATGACTT-TGGTAAAA-TAAGGGC-TCAGGAAAATTGCCTG
1 GATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAA-GACTTAACG-AAATGGCCTA
* ** * * * ** * *
49625 GATGAAATTACAAACCTAAATAATGACTTAGGGCATAAGTAAAACTTAA-TAAATGGCCTA
1 GATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAACGAAATGGCCTA
* * * * * *
49685 AATGAAACTAGAAAA-CTAAATAATGACTTA-GGCAAAACCAAGACTCAACAAAATGGCCTA
1 GATAAAACCA-AAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAACGAAATGGCCTA
* * * ** * * * * **
49745 AATGAAACTAGAAAAAGTAAACAATAACTTA-GACGAAACCAAGA-TTGAATGAAATGATCTA
1 GATAAAACCA-AAAACCTAAACAATGACTTAGGGCAAAACCAAGACTT-AACGAAATGGCCTA
* * * * * * *
49806 GATAAAATCAAAAACCTAAATAAAGA-TTCAGATG--AAACCCAGA-TTCAACGAAATGGCTTG
1 GATAAAACCAAAAACCTAAACAATGACTT-AG-GGCAAAACCAAGACTT-AACGAAATGGCCTA
* * * * * * ** *
49866 GATAAGACCAAAACCCTAAACAATGACTT-GGGCAAAACCAAAACTCAATGAAATAGATTG
1 GATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAACGAAATGGCCTA
* * * * * * * *
49926 GATAAGACTAGAAACCTAAACAGTGACCTA-GGTAAAACCAAGACTCAA-GAAAATGGCCTGG
1 GATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAACG-AAATGGCCT-A
* * *** * ** *
49987 GA-GAAACCAAAAACCTAAATAATGACTTA-AATAAAACCAAGACTCAAAAAAATGACCTA
1 GATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAACGAAATGGCCTA
*** *
50046 GATAAAACTTGAAACCTAAACTATGACT
1 GATAAAACCAAAAACCTAAACAATGACT
50074 ATATATGAAC
Statistics
Matches: 624, Mismatches: 155, Indels: 60
0.74 0.18 0.07
Matches are distributed among these distances:
58 2 0.00
59 38 0.06
60 508 0.81
61 70 0.11
62 6 0.01
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.19
Consensus pattern (61 bp):
GATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAACGAAATGGCCTA
Found at i:49393 original size:120 final size:121
Alignment explanation
Indices: 49206--50073 Score: 538
Period size: 120 Copynumber: 7.2 Consensus size: 121
49196 AATGGTTTGG
* * * * * * * ** * * * *
49206 ATAAAACCAGAAACCTAAACAATAACATAGGCATAACCAAGACTTAATGAAATCGCTTAGATAAA
1 ATAAAACTAGAAACCTAAATAATGACTTAGGTAAAACCAAGACTCAACAAAATGGCCTGGATGAA
* * *
49271 ACCAAAAACCT-AACAATGACTTAGGACAAAACCAAAACTTAACAAAATCACTTGA
66 ACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAAACTTAATAAAATGACTTGA
*
49326 ATAAAACTAGAAACCTAAATAATGACTTAGGTAAAACCGAGACTCAACAAAATGGCCTGGATGAA
1 ATAAAACTAGAAACCTAAATAATGACTTAGGTAAAACCAAGACTCAACAAAATGGCCTGGATGAA
** * * * * * * *
49391 ACCTGAAACCTAAACAATAACTT-GGGCAAAACTAAGAGTCAATGAAATGA-TCTGG
66 ACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAAACTTAATAAAATGACT-TGA
* * * * * * * * ** * *
49446 ATAAAA-TCAAAAACCTAAACAAAGATTTGGGTGAAACCAAGATTTAAGGAAATGGCCTAGATAA
1 ATAAAACT-AGAAACCTAAATAATGACTTAGGTAAAACCAAGACTCAACAAAATGGCCTGGATGA
* * * * *
49510 AATCAAAATCCTAAACAATGACTT-GGGCAAAA-TAAAGACTTAA-AGAAATGGCCT-A
65 AACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAA-ACTTAATA-AAATGACTTGA
* * * * ** *
49565 GATAAAATTAGAAACCTAAATAATGACTTTGGTAAAA-TAAGGGCTCAGGAAAATTGCCTGGATG
1 -ATAAAACTAGAAACCTAAATAATGACTTAGGTAAAACCAA-GACTCAACAAAATGGCCTGGATG
** * * * ** * * *
49629 AAATTACAAACCTAAATAATGACTTAGGGCATAAGTAAAACTTAAT-AAATGGCCTAA
64 AAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAAACTTAATAAAATGACTTGA
* * * **
49686 ATGAAACTAGAAAACTAAATAATGACTTAGGCAAAACCAAGACTCAACAAAATGGCCTAAATGAA
1 ATAAAACTAGAAACCTAAATAATGACTTAGGTAAAACCAAGACTCAACAAAATGGCCTGGATGAA
* ** * * * * * *
49751 ACTAGAAAAAGTAAACAATAACTTA-GACGAAACCAAGA-TTGAATGAAATGATCTAG-
66 ACCA-AAAACCTAAACAATGACTTAGGGCAAAACCAAAACTT-AATAAAATGA-CTTGA
* * * * * * * *
49807 ATAAAA-TCAAAAACCTAAATAAAGA-TTCAGATGAAACCCAGATTCAACGAAATGGCTTGGAT-
1 ATAAAACT-AGAAACCTAAATAATGACTT-AGGTAAAACCAAGACTCAACAAAATGGCCTGGATG
* * * *
49869 AAGACCAAAACCCTAAACAATGACTT-GGGCAAAACCAAAACTCAATGAAATAGA-TTGG
64 AA-ACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAAACTTAATAAAAT-GACTTGA
* * * * *
49927 ATAAGACTAGAAACCTAAACAGTGACCTAGGTAAAACCAAGACTCAAGAAAATGGCCTGGGA-GA
1 ATAAAACTAGAAACCTAAATAATGACTTAGGTAAAACCAAGACTCAACAAAATGGCCT-GGATGA
* *** * * * *
49991 AACCAAAAACCTAAATAATGACTTA-AATAAAACCAAGACTCAAAAAAATGACCT-A
65 AACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAAACTTAATAAAATGACTTGA
*
50046 GATAAAACTTGAAACCTAAACT-ATGACT
1 -ATAAAACTAGAAACCTAAA-TAATGACT
50074 ATATATGAAC
Statistics
Matches: 565, Mismatches: 150, Indels: 66
0.72 0.19 0.08
Matches are distributed among these distances:
119 13 0.02
120 443 0.78
121 104 0.18
122 5 0.01
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.19
Consensus pattern (121 bp):
ATAAAACTAGAAACCTAAATAATGACTTAGGTAAAACCAAGACTCAACAAAATGGCCTGGATGAA
ACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAAACTTAATAAAATGACTTGA
Found at i:49532 original size:180 final size:177
Alignment explanation
Indices: 49326--49913 Score: 497
Period size: 180 Copynumber: 3.3 Consensus size: 177
49316 AATCACTTGA
* * * *
49326 ATAAAACTAGAAACCTAAATAATGACTTAGGTAAAACCGAGACTCAACAAAATGGCCTGGATGAA
1 ATAAAAC-A-AAACCTAAACAATGACTTAGGCAAAACCAAGACTCAACAAAATGGCCTAGATGAA
*
49391 ACCT-GAAACCTAAACAATAACTTGGGCAAAACTAAGAGTCAATGAAATGATCTGGATAAAATCA
64 A-CTAGAAACCTAAACAATAACTTAGGCAAAACTAAGAGTCAATGAAATGATCTGGATAAAATCA
* *
49455 AAAACCTAAACAAAGATTTGGGTGAAACCAAGATTTAAGGAAATGGCCTAG
128 AAAACCTAAATAAAGATTAGGGTGAAACCAAGATTTAA-GAAATGGCCTAG
* ** * *
49506 ATAAAATCAAAATCCTAAACAATGACTTGGGCAAAATAAAGACTTAA-AGAAATGGCCTAGATAA
1 ATAAAA-CAAAA-CCTAAACAATGACTTAGGCAAAACCAAGACTCAACA-AAATGGCCTAGATGA
* * * * * * * * *
49570 AATTAGAAACCTAAATAATGACTTTGGTAAAA-TAAGGGCTC-AGGAAAATTG-CCTGGATGAAA
63 AACTAGAAACCTAAACAATAACTTAGGCAAAACTAAGAG-TCAATG-AAA-TGATCTGGATAAAA
* * * * ** * * * *
49632 TTACAAACCTAAATAATGACTTAGGG-CATAAGTAAAACTTAATAAATGGCCTAA
125 TCAAAAACCTAAATAAAGA-TTAGGGTGA-AACCAAGATTTAAGAAATGGCCTAG
* * * *
49686 ATGAAACTAGAAAACTAAATAATGACTTAGGCAAAACCAAGACTCAACAAAATGGCCTAAATGAA
1 ATAAAAC-A-AAACCTAAACAATGACTTAGGCAAAACCAAGACTCAACAAAATGGCCTAGATGAA
** * * * * * *
49751 ACTAGAAAAAGTAAACAATAACTTAGACGAAACCAAGATTGAATGAAATGATCTAGATAAAATCA
64 ACTAG-AAACCTAAACAATAACTTAGGCAAAACTAAGAGTCAATGAAATGATCTGGATAAAATCA
* * * * *
49816 AAAACCTAAATAAAGATTCA-GATGAAACCCAGATTCAACGAAATGGCTTGG
128 AAAACCTAAATAAAGATT-AGGGTGAAACCAAGATTTAA-GAAATGGCCTAG
* * *
49867 ATAAGACCAAAACCCTAAACAATGACTTGGGCAAAACCAAAACTCAA
1 ATAA-AACAAAA-CCTAAACAATGACTTAGGCAAAACCAAGACTCAA
49914 TGAAATAGAT
Statistics
Matches: 310, Mismatches: 77, Indels: 41
0.72 0.18 0.10
Matches are distributed among these distances:
179 13 0.04
180 179 0.58
181 111 0.36
182 7 0.02
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (177 bp):
ATAAAACAAAACCTAAACAATGACTTAGGCAAAACCAAGACTCAACAAAATGGCCTAGATGAAAC
TAGAAACCTAAACAATAACTTAGGCAAAACTAAGAGTCAATGAAATGATCTGGATAAAATCAAAA
ACCTAAATAAAGATTAGGGTGAAACCAAGATTTAAGAAATGGCCTAG
Found at i:49940 original size:361 final size:360
Alignment explanation
Indices: 49205--50015 Score: 898
Period size: 361 Copynumber: 2.2 Consensus size: 360
49195 AAATGGTTTG
* * * * * * * **
49205 GATAAAACCAGAAACCTAAACAATAACATAGGCATAACCAAGACTTAATG-AAATCG-CTTAGAT
1 GATAAAACTAGAAACCTAAACAATGACCTAGGTAAAACCAAGACTCAA-GAAAATGGCCTGGGA-
* * * * ** * ** * * *
49268 AAAACCAAAAACCT-AACAATGACTTAGGACAAAACCAAAACTTAACAAAATCACTTGAATAAAA
64 GAAACCAAAAACCTAAATAATGACTTAGGGCATAAGTAAAACTTAA-TAAATGGCCTAAATGAAA
* * * **
49332 CTAGAAACCTAAATAATGACTTAGGTAAAACCGAGACTCAACAAAATGGCCTGGATGAAACCTGA
128 CTAGAAAACTAAATAATGACTTAGGCAAAACCAAGACTCAACAAAATGGCCTAAATGAAACCTGA
* * * * *
49397 AACCTAAACAATAACTTGGGCAAAACTAAGAGTCAATGAAATGATCTGGATAAAATCAAAAACCT
193 AAACTAAACAATAACTTAGACAAAACCAAGAGTCAATGAAATGATCTAGATAAAATCAAAAACCT
** * * * * *
49462 AAACAAAGATTTGGGTGAAACCAAGATTTAAGGAAATGGCCTAGATAAAATCAAAATCCTAAACA
258 AAACAAAGATTCAGATGAAACCAAGATTCAACGAAATGGCCTAGATAAAACCAAAACCCTAAACA
* * * *
49527 ATGACTTGGGCAAAATAAAGACTTAAAGAAATGGCCTA
323 ATGACTTGGGCAAAACAAAGACTCAAAGAAATAGACTA
* * * * * * * *
49565 GATAAAATTAGAAACCTAAATAATGACTTTGGTAAAA-TAAGGGCTCAGGAAAATTGCCT-GGAT
1 GATAAAACTAGAAACCTAAACAATGACCTAGGTAAAACCAA-GACTCAAGAAAATGGCCTGGGA-
** *
49628 GAAATTACAAACCTAAATAATGACTTAGGGCATAAGTAAAACTTAATAAATGGCCTAAATGAAAC
64 GAAACCAAAAACCTAAATAATGACTTAGGGCATAAGTAAAACTTAATAAATGGCCTAAATGAAAC
49693 TAGAAAACTAAATAATGACTTAGGCAAAACCAAGACTCAACAAAATGGCCTAAATGAAA-CTAGA
129 TAGAAAACTAAATAATGACTTAGGCAAAACCAAGACTCAACAAAATGGCCTAAATGAAACCT-G-
* * * *
49757 AAAAGTAAACAATAACTTAGACGAAACCAAGATTGAATGAAATGATCTAGATAAAATCAAAAACC
192 AAAACTAAACAATAACTTAGACAAAACCAAGAGTCAATGAAATGATCTAGATAAAATCAAAAACC
* * * * *
49822 TAAATAAAGATTCAGATGAAACCCAGATTCAACGAAATGGCTTGGATAAGACCAAAACCCTAAAC
257 TAAACAAAGATTCAGATGAAACCAAGATTCAACGAAATGGCCTAGATAAAACCAAAACCCTAAAC
* * *
49887 AATGACTTGGGCAAAACCAAA-ACTCAATGAAATAGATTG
322 AATGACTTGGGCAAAA-CAAAGACTCAAAGAAATAGACTA
* *
49926 GATAAGACTAGAAACCTAAACAGTGACCTAGGTAAAACCAAGACTCAAGAAAATGGCCTGGGAGA
1 GATAAAACTAGAAACCTAAACAATGACCTAGGTAAAACCAAGACTCAAGAAAATGGCCTGGGAGA
49991 AACCAAAAACCTAAATAATGACTTA
66 AACCAAAAACCTAAATAATGACTTA
50016 AATAAAACCA
Statistics
Matches: 367, Mismatches: 75, Indels: 17
0.80 0.16 0.04
Matches are distributed among these distances:
359 5 0.01
360 119 0.32
361 235 0.64
362 8 0.02
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.19
Consensus pattern (360 bp):
GATAAAACTAGAAACCTAAACAATGACCTAGGTAAAACCAAGACTCAAGAAAATGGCCTGGGAGA
AACCAAAAACCTAAATAATGACTTAGGGCATAAGTAAAACTTAATAAATGGCCTAAATGAAACTA
GAAAACTAAATAATGACTTAGGCAAAACCAAGACTCAACAAAATGGCCTAAATGAAACCTGAAAA
CTAAACAATAACTTAGACAAAACCAAGAGTCAATGAAATGATCTAGATAAAATCAAAAACCTAAA
CAAAGATTCAGATGAAACCAAGATTCAACGAAATGGCCTAGATAAAACCAAAACCCTAAACAATG
ACTTGGGCAAAACAAAGACTCAAAGAAATAGACTA
Found at i:50627 original size:88 final size:88
Alignment explanation
Indices: 50470--50939 Score: 503
Period size: 88 Copynumber: 5.3 Consensus size: 88
50460 ATGCATCCAG
* * * * * * *
50470 AATAAGGCAAATGCCAATGTCATCTAACAATGCAGAT-GGACATGAAATAATGTCAA-TGCAAAC
1 AATAATGCAAATACCAATGTCATCTAA-AGTGCAGATATG-CGTGAAATGATG-CAACTGCAAGC
**
50533 ATCAATAAAGTGGCAAATATATATGA
63 ATCAATAAAGTGGCAAATGCATATGA
* ** * *
50559 AATAATGCAAATACCAATGTCATTTAAAGTTTAGATATGTGTGAAATGATGCAAATGCAAGCATC
1 AATAATGCAAATACCAATGTCATCTAAAGTGCAGATATGCGTGAAATGATGCAACTGCAAGCATC
50624 AATAAAGTGGCAAATGCATATGA
66 AATAAAGTGGCAAATGCATATGA
* * * *** * * * * * *
50647 AATTATGCAAATACCAATCTCATATAAAGTATTGATATACATGAAATAATGCAGCTGCAAGGACC
1 AATAATGCAAATACCAATGTCATCTAAAGTGCAGATATGCGTGAAATGATGCAACTGCAAGCATC
*
50712 AATAAAATGGCAAATGCATATGA
66 AATAAAGTGGCAAATGCATATGA
* * * *
50735 AATGATGCAAATACCAATGTCATCTAAAGTGCAGATGTGCGTGAAAAGATGCAGCTGCAAGCATC
1 AATAATGCAAATACCAATGTCATCTAAAGTGCAGATATGCGTGAAATGATGCAACTGCAAGCATC
* * *
50800 AATAAAATTGCAAATGCACATGA
66 AATAAAGTGGCAAATGCATATGA
* * * * * * * *
50823 AATAATGCAAATGCCAATGTTATCTAAAATGCAAATAAGTGTGAAATGATGCAACTGTAACCATC
1 AATAATGCAAATACCAATGTCATCTAAAGTGCAGATATGCGTGAAATGATGCAACTGCAAGCATC
*
50888 AATAAAGTGGGAAATGCATATGA
66 AATAAAGTGGCAAATGCATATGA
*
50911 AATAATGCAAATGCCAATGTCATCTAAAG
1 AATAATGCAAATACCAATGTCATCTAAAG
50940 GTGTAGATGC
Statistics
Matches: 319, Mismatches: 60, Indels: 5
0.83 0.16 0.01
Matches are distributed among these distances:
87 3 0.01
88 291 0.91
89 25 0.08
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.24
Consensus pattern (88 bp):
AATAATGCAAATACCAATGTCATCTAAAGTGCAGATATGCGTGAAATGATGCAACTGCAAGCATC
AATAAAGTGGCAAATGCATATGA
Found at i:50648 original size:44 final size:44
Alignment explanation
Indices: 50600--50924 Score: 168
Period size: 44 Copynumber: 7.4 Consensus size: 44
50590 TAGATATGTG
50600 TGAAATGATGCAAATGCAAGCATCAATAAAGTGGCAAATGCATA
1 TGAAATGATGCAAATGCAAGCATCAATAAAGTGGCAAATGCATA
* * * * * *
50644 TGAAATTATGCAAATACCAATC-TCATATAAAGTATTG-ATAT--ACA
1 TGAAATGATGCAAAT-GCAAGCATCA-ATAAAG--TGGCAAATGCATA
* ** * * *
50688 TGAAATAATGCAGCTGCAAGGACCAATAAAATGGCAAATGCATA
1 TGAAATGATGCAAATGCAAGCATCAATAAAGTGGCAAATGCATA
* * ****
50732 TGAAATGATGCAAATACCAATGTCATC--TAAAGT-GCAGATGTGCG
1 TGAAATGATGCAAAT-GCAA-G-CATCAATAAAGTGGCAAATGCATA
* ** * * *
50776 TGAAAAGATGCAGCTGCAAGCATCAATAAAATTGCAAATGCACA
1 TGAAATGATGCAAATGCAAGCATCAATAAAGTGGCAAATGCATA
* * * * *
50820 TGAAATAATGCAAATGCCAATGTTATC--TAAAAT-GCAAAT-AAGTG
1 TGAAATGATGCAAATG-CAA-G-CATCAATAAAGTGGCAAATGCA-TA
* * * *
50864 TGAAATGATGCAACTGTAACCATCAATAAAGTGGGAAATGCATA
1 TGAAATGATGCAAATGCAAGCATCAATAAAGTGGCAAATGCATA
*
50908 TGAAATAATGCAAATGC
1 TGAAATGATGCAAATGC
50925 CAATGTCATC
Statistics
Matches: 201, Mismatches: 58, Indels: 44
0.66 0.19 0.15
Matches are distributed among these distances:
41 9 0.04
42 4 0.02
43 24 0.12
44 124 0.62
45 28 0.14
46 5 0.02
47 7 0.03
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.23
Consensus pattern (44 bp):
TGAAATGATGCAAATGCAAGCATCAATAAAGTGGCAAATGCATA
Found at i:51604 original size:112 final size:112
Alignment explanation
Indices: 51407--51627 Score: 275
Period size: 112 Copynumber: 2.0 Consensus size: 112
51397 AAAAACTTTG
* * *
51407 GTTGGCACAAAAATTTCAAAACTAATAGGATACATGCCCTATTTTCCTAGATACGAATGGATCAG
1 GTTGGCACAAAAATTTCAAAACTAATAGGATACATGCCCTATTTTCCTAGACACGAATAGATAAG
* *
51472 ATCGTATAAAATATTAATTTCTTCGAAAAACAAACAAATTTGATGTT
66 ATCGTATAAAACATGAATTTCTTCGAAAAACAAACAAATTTGATGTT
* * * * *
51519 GTTGGCTCAAAAATTTCAAAATTGATAGGATACGTGCCCTACTTTT-CTAGGCACGAATAGATTA
1 GTTGGCACAAAAATTTCAAAACTAATAGGATACATGCCCTA-TTTTCCTAGACACGAATAGA-TA
* * * * *
51583 AG-TTGTATGAAACATGAATTTCTTTGAAAATCAGACAAATTTGAT
64 AGATCGTATAAAACATGAATTTCTTCGAAAAACAAACAAATTTGAT
51628 ATTCTTTTAA
Statistics
Matches: 92, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
112 85 0.92
113 7 0.08
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.32
Consensus pattern (112 bp):
GTTGGCACAAAAATTTCAAAACTAATAGGATACATGCCCTATTTTCCTAGACACGAATAGATAAG
ATCGTATAAAACATGAATTTCTTCGAAAAACAAACAAATTTGATGTT
Found at i:53448 original size:5 final size:6
Alignment explanation
Indices: 53419--53451 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
53409 AATAACATAA
*
53419 AAAATG AAAATG AAAATG AAAAAG AAAA-G AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAA
53452 CCTTGGAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (6 bp):
AAAATG
Found at i:55562 original size:155 final size:157
Alignment explanation
Indices: 55201--55566 Score: 400
Period size: 155 Copynumber: 2.3 Consensus size: 157
55191 CCTTTTATGT
* * * **
55201 TATTTTAGTGTCCATTAAGGTTACCGGGATACTTTCAC-ATCGAAAGTATACCCATAGGGGTATT
1 TATTTTAGTGTCCATTAGGGTTACCGGGATACTTTC-CTGTCGAAAGTATACCCATAAGGCCATT
* * * * * *
55265 TTTGTAATTTTACAAAATCGAGTCCTAGGTTGTCATCGGGTTCGCTTTTATGTTAAAGGTGGGTA
65 TTCGTAATTTTACAAAATCGAGTCCTAGGTTGTCACCGAGATCGCTTCTATGCTAAAGGTGGGTA
55330 TTTAGGATAGGTTCATCCCATCTATAAC
130 TTTAGGATAGGTTCATCCCATCTATAAC
* ** * * ** *
55358 TTTTTTCTTGTCCTTTAGGGTTATCGGGATACTTTTATGTCAAAAGTATACCC-TAAGGCCATTT
1 TATTTTAGTGTCCATTAGGGTTACCGGGATACTTTCCTGTCGAAAGTATACCCATAAGGCCATTT
** * *
55422 TCGTAATTTTTTAAGATCGAGTCTTAGGTTGTCACCGAGAT-GCTTCTATGCTAAAGGTGGGTAT
66 TCGTAATTTTACAAAATCGAGTCCTAGGTTGTCACCGAGATCGCTTCTATGCTAAAGGTGGGTAT
* * *
55486 TTAGGATAGGTTTATCCTATTGCT-TATC
131 TTAGGATAGGTTCATCCCA-T-CTATAAC
* ** *
55514 -ATTTTAGTGTCCACTAGGGTTACCAAGATACTTTCCTGTCGAAGGTATACCCA
1 TATTTTAGTGTCCATTAGGGTTACCGGGATACTTTCCTGTCGAAAGTATACCCA
55567 AAAACTATTG
Statistics
Matches: 167, Mismatches: 38, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
155 78 0.47
156 45 0.27
157 44 0.26
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (157 bp):
TATTTTAGTGTCCATTAGGGTTACCGGGATACTTTCCTGTCGAAAGTATACCCATAAGGCCATTT
TCGTAATTTTACAAAATCGAGTCCTAGGTTGTCACCGAGATCGCTTCTATGCTAAAGGTGGGTAT
TTAGGATAGGTTCATCCCATCTATAAC
Found at i:60700 original size:153 final size:152
Alignment explanation
Indices: 60432--60714 Score: 392
Period size: 153 Copynumber: 1.9 Consensus size: 152
60422 TCGGACTTGG
* * ** ** * *
60432 TTCTTAAAAAATTACCAAAATACCCCTAAGGTATATTTTCGATATGAAAGTAGCCAGTAATCTTA
1 TTCTAAAAAAATAACCAAAATACCCCTAAGGTATACCTTAAACATGAAAGTACCCAGTAATCTTA
**
60497 AAGGATGTAAAATATTATAAAAGGATGAACCTATCCTAAATGTATACCTTTAGCAAAAAAGCAAC
66 AAGGATGTAAAATATTATAAAAGGATGAACCTATCCTAAACATATACCTTTAGCAAAAAAGCAAC
60562 GCGACGACTACCTAGGACTCGA
131 GCGACGACTACCTAGGACTCGA
* *
60584 TTCTAAAAAAATAACCAAAATGCCCTTAAGGTATACCTTAAACATGAAAGTACCCAGTAAT-TCT
1 TTCTAAAAAAATAACCAAAATACCCCTAAGGTATACCTTAAACATGAAAGTACCCAGTAATCT-T
*
60648 -AAGGAACATG-AAAATATTATAAAAGGATGAACCTATCCTAAACATATACCTTTAGCATAAAAG
65 AAAGG---ATGTAAAATATTATAAAAGGATGAACCTATCCTAAACATATACCTTTAGCAAAAAAG
60711 CAAC
127 CAAC
60715 CCGGTGACCA
Statistics
Matches: 114, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
151 5 0.04
152 52 0.46
153 54 0.47
154 3 0.03
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (152 bp):
TTCTAAAAAAATAACCAAAATACCCCTAAGGTATACCTTAAACATGAAAGTACCCAGTAATCTTA
AAGGATGTAAAATATTATAAAAGGATGAACCTATCCTAAACATATACCTTTAGCAAAAAAGCAAC
GCGACGACTACCTAGGACTCGA
Found at i:64161 original size:40 final size:40
Alignment explanation
Indices: 64094--64257 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
64084 ATAAGACAGA
* * * *
64094 ATGTATCGATACAATGAAGAATATATCGATACAGTCATAC
1 ATGTATCGATACATTAAAAAATGTATCGATACAGTCATAC
* * *
64134 ATGTATCGATGCATTAAAAAATGTATCGATACATCTGGGTAAAAAGATAGA
1 ATGTATCGATACATTAAAAAATGTATCGATACA-----GT-----CATA-C
* * *
64185 ATGTATCAATACATTGAAGAATGTATCGATACAGTCATAC
1 ATGTATCGATACATTAAAAAATGTATCGATACAGTCATAC
64225 ATGTATCGATACATTAAAAAATGTATCGATACA
1 ATGTATCGATACATTAAAAAATGTATCGATACA
64258 TCTGGGTAAA
Statistics
Matches: 97, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
40 58 0.60
41 3 0.03
45 2 0.02
46 2 0.02
50 3 0.03
51 29 0.30
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.29
Consensus pattern (40 bp):
ATGTATCGATACATTAAAAAATGTATCGATACAGTCATAC
Found at i:64258 original size:20 final size:20
Alignment explanation
Indices: 64093--64258 Score: 89
Period size: 20 Copynumber: 7.8 Consensus size: 20
64083 AATAAGACAG
* * *
64093 AATGTATCGATACAATGAAG
1 AATGTATCGATACATTAAAA
* * * *
64113 AATATATCGATACAGTCATA
1 AATGTATCGATACATTAAAA
* *
64133 CATGTATCGATGCATTAAAA
1 AATGTATCGATACATTAAAA
64153 AATGTATCGATACATCTGGGTAAAAAGATA
1 AATGTATCGATACA--T---T---AA-A-A
* * *
64183 GAATGTATCAATACATTGAAG
1 -AATGTATCGATACATTAAAA
* * *
64204 AATGTATCGATACAGTCATA
1 AATGTATCGATACATTAAAA
*
64224 CATGTATCGATACATTAAAA
1 AATGTATCGATACATTAAAA
64244 AATGTATCGATACAT
1 AATGTATCGATACAT
64259 CTGGGTAAAA
Statistics
Matches: 109, Mismatches: 26, Indels: 22
0.69 0.17 0.14
Matches are distributed among these distances:
20 86 0.79
22 2 0.02
23 1 0.01
25 1 0.01
26 1 0.01
28 2 0.02
29 2 0.02
30 1 0.01
31 13 0.12
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACATTAAAA
Found at i:64299 original size:20 final size:20
Alignment explanation
Indices: 64274--64337 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
64264 TAAAAAATAT
*
64274 AGAATGTATCAATACATTGA
1 AGAATGTATCGATACATTGA
**
64294 AGAATGTATCGATACATCCA
1 AGAATGTATCGATACATTGA
*
64314 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
64334 AGAA
1 AGAA
64338 GATCCTTTAC
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
19 1 0.03
20 33 0.94
21 1 0.03
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:64306 original size:92 final size:92
Alignment explanation
Indices: 64041--64331 Score: 460
Period size: 91 Copynumber: 3.2 Consensus size: 92
64031 TTTTAACTAG
* * ** * *
64041 ATGTATCGATACATTGAAAAATATATCGATACATCTGGAAAAAATAAGACAGAATGTATCGATAC
1 ATGTATCGATACATTAAAAAATGTATCGATACATCTGGGTAAAA-AAGATAGAATGTATCAATAC
* *
64106 AATGAAGAATATATCGATACAGTCATAC
65 ATTGAAGAATGTATCGATACAGTCATAC
*
64134 ATGTATCGATGCATTAAAAAATGTATCGATACATCTGGGT-AAAAAGATAGAATGTATCAATACA
1 ATGTATCGATACATTAAAAAATGTATCGATACATCTGGGTAAAAAAGATAGAATGTATCAATACA
64198 TTGAAGAATGTATCGATACAGTCATAC
66 TTGAAGAATGTATCGATACAGTCATAC
*
64225 ATGTATCGATACATTAAAAAATGTATCGATACATCTGGGTAAAAAATATAGAATGTATCAATACA
1 ATGTATCGATACATTAAAAAATGTATCGATACATCTGGGTAAAAAAGATAGAATGTATCAATACA
64290 TTGAAGAATGTATCGATACA-TCCATAC
66 TTGAAGAATGTATCGATACAGT-CATAC
64317 ATGTATCGATACATT
1 ATGTATCGATACATT
64332 GAAGAAGATC
Statistics
Matches: 185, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
91 84 0.45
92 66 0.36
93 35 0.19
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (92 bp):
ATGTATCGATACATTAAAAAATGTATCGATACATCTGGGTAAAAAAGATAGAATGTATCAATACA
TTGAAGAATGTATCGATACAGTCATAC
Found at i:64949 original size:48 final size:48
Alignment explanation
Indices: 64887--65258 Score: 609
Period size: 48 Copynumber: 7.8 Consensus size: 48
64877 AGAGGAGTGC
** **
64887 CAATGTGCCAATTCAAGGCCAATGACATTGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
**
64935 CAATGTGCTGATTCAAGGCCATTGACATTGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
*
64983 CAATGTGCTGATTCAAGGCCAGCGACATTGTGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
*
65031 CAATGTGCTTATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
* *
65079 CAATATGCTGATTCAAGGCCAGCGACATTGAGTTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
* * * *
65127 TAATGTGCTGATTCAAGGCTAGCGACATTAAACTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
*
65175 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTAGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
65223 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA
65259 TAAAGGTGCC
Statistics
Matches: 302, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 302 1.00
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.21
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
Found at i:65503 original size:28 final size:28
Alignment explanation
Indices: 65367--65800 Score: 454
Period size: 28 Copynumber: 14.9 Consensus size: 28
65357 TTAAAAAAAA
*
65367 GGTGCCACTAACTTAAGTGGGCTTTGAAAAG
1 GGTGCCACTGACTT--GTGGGCTTTG-AAAG
* * *
65398 AGTTACCACTAACTTAAGTGGGCTTTGAAAAG
1 -GGTGCCACTGACTT--GTGGGCTTTG-AAAG
* * *
65430 AGTTACCACCGACTCGTGTGGGCTTTGAAAAG
1 -GGTGCCACTGACT--TGTGGGCTTTG-AAAG
* *
65462 AGTGCCACCGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
65490 GGTGTCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
65518 GGTGCCACTGACTTGTGAGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* * * *
65547 AGTTACCACCGACTCGTGGGCTTTGAAAG
1 -GGTGCCACTGACTTGTGGGCTTTGAAAG
*
65576 GATGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
65604 GGTGTCACTGACTTATGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
65632 GAGTGCCACTGACTTATGGGCTTTGAAAG
1 G-GTGCCACTGACTTGTGGGCTTTGAAAG
* *
65661 GGTACCACTAACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* * * *
65690 AGTTGCCACCGACTCGTGGGTTTTGAAAG
1 -GGTGCCACTGACTTGTGGGCTTTGAAAG
** *
65719 AATGCCATTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
65747 GATGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
65775 AGTGCCACTGACTTGTGGGCTTTGAA
1 GGTGCCACTGACTTGTGGGCTTTGAA
65801 GAGATGAACG
Statistics
Matches: 351, Mismatches: 44, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
28 193 0.55
29 54 0.15
30 37 0.11
31 10 0.03
32 56 0.16
34 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (28 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAG
Found at i:65643 original size:143 final size:143
Alignment explanation
Indices: 65367--65800 Score: 593
Period size: 143 Copynumber: 3.0 Consensus size: 143
65357 TTAAAAAAAA
** *
65367 GGTGCCACTAACTTAAGTGGGCTTTGAAAAGAGTTACCACTAACTTAAGTGGGCTTTGAAAAGAG
1 GGTGCCACTAACTT--GTGGGCTTTGAAAAGAGTTACCACCGAC-T-CGTGGGCTTTG-AAAG-G
* * * * * *
65432 TTACCACCGACTCGTGTGGGCTTTGAAAAGAGTGCCACCGACTTGTGGGCTTTGAAAGG-GTGTC
60 ATGCCACTGACT--TGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCC
65496 ACTGACTTGTGGGCTTTGAAAG
122 ACTGACTTGTGGGCTTTGAAAG
* *
65518 GGTGCCACTGACTTGTGAGCTTTGAAAAGAGTTACCACCGACTCGTGGGCTTTGAAAGGATGCCA
1 GGTGCCACTAACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTGGGCTTTGAAAGGATGCCA
* * *
65583 CTGACTTGTGGGCTTTGAAAGGGTGTCACTGACTTATGGGCTTTGAAAGGAGTGCCACTGACTTA
66 CTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTG
65648 TGGGCTTTGAAAG
131 TGGGCTTTGAAAG
* * * *
65661 GGTACCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGGGTTTTGAAAGAATGCCA
1 GGTGCCACTAACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTGGGCTTTGAAAGGATGCCA
* *
65726 TTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTG
66 CTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTG
65790 TGGGCTTTGAA
131 TGGGCTTTGAA
65801 GAGATGAACG
Statistics
Matches: 257, Mismatches: 25, Indels: 11
0.88 0.09 0.04
Matches are distributed among these distances:
142 55 0.21
143 139 0.54
145 10 0.04
146 4 0.02
147 10 0.04
148 1 0.00
149 25 0.10
151 13 0.05
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (143 bp):
GGTGCCACTAACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTGGGCTTTGAAAGGATGCCA
CTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTG
TGGGCTTTGAAAG
Found at i:65739 original size:171 final size:171
Alignment explanation
Indices: 65383--65800 Score: 507
Period size: 171 Copynumber: 2.4 Consensus size: 171
65373 ACTAACTTAA
* * * * * *
65383 GTGGGCTTTGAAAAGAGTTACCACTAACTTAAGTGGGCTTTGAAAAGAGTTACCACCGACTCGTG
1 GTGGGCTTTG-AAAG-GATGCCACTGACTT--GTGGGCTTTG-AAAGAG-TGCCACTGACT--TA
* ** *
65448 TGGGCTTTGAAAAGAGTGCCACCGACTTGTGGGCTTTGAAAGGGTGTCACTGACTTGTGGGCTTT
58 TGGGCTTTGAAAAGAGTGCCACCGACTTATGGGCTTTGAAAGGGTACCACTAACTTGTGGGCTTT
* * *
65513 GAAAGGGTGCCACTGACTTGTGAGCTTTGAAAAGAGTTACCACCGACTC
123 GAAAGGGTGCCACCGACTCGTGAGCTTTGAAAAGAGATACCACCGACTC
* *
65562 GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGTCACTGACTTATGGGCTTT
1 GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTATGGGCTTT
* *
65627 GAAAGGAGTGCCACTGACTTATGGGCTTTGAAAGGGTACCACTAACTTGTGGGCTTTGAAAAGAG
66 GAAAAGAGTGCCACCGACTTATGGGCTTTGAAAGGGTACCACTAACTTGTGGGCTTTG-AAAG-G
* * * * ** *
65692 TTGCCACCGACTCGTGGGTTTTG-AAAGA-ATGCCATTGACTT
129 GTGCCACCGACTCGTGAGCTTTGAAAAGAGATACCACCGACTC
*
65733 GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTT
1 GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTATGGGCTTT
65798 GAA
66 GAA
65801 GAGATGAACG
Statistics
Matches: 210, Mismatches: 27, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
171 134 0.64
172 9 0.04
173 27 0.13
174 5 0.02
175 10 0.05
177 11 0.05
178 4 0.02
179 10 0.05
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (171 bp):
GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTATGGGCTTT
GAAAAGAGTGCCACCGACTTATGGGCTTTGAAAGGGTACCACTAACTTGTGGGCTTTGAAAGGGT
GCCACCGACTCGTGAGCTTTGAAAAGAGATACCACCGACTC
Found at i:67046 original size:1 final size:1
Alignment explanation
Indices: 67042--67096 Score: 65
Period size: 1 Copynumber: 55.0 Consensus size: 1
67032 TTTTTCTTGG
* * * * *
67042 TTTTTTCTTTTTTTTTTGTTTTTTTGTTTTTTTTTGTTTTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
67097 GGGGTATGAA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.02, G:0.07, T:0.91
Consensus pattern (1 bp):
T
Found at i:67063 original size:29 final size:28
Alignment explanation
Indices: 67014--67098 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 28
67004 TCTAGACCCC
67014 TTTCTATTTTTTCTTAT-TTTTTTCTTGGTTT
1 TTTCT-TTTTTT-TT-TGTTTTTT-TTGGTTT
**
67045 TTTCTTTTTTTTTTGTTTTTTTGTTTTTT
1 TTTCTTTTTTTTTTGTTTTTTT-TGGTTT
*
67074 TTTGTTTTTTTTTTGTTTTTTTTGG
1 TTTCTTTTTTTTTTGTTTTTTTTGG
67099 GGTATGAAGG
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
28 3 0.06
29 33 0.70
30 6 0.13
31 5 0.11
ACGTcount: A:0.02, C:0.05, G:0.09, T:0.84
Consensus pattern (28 bp):
TTTCTTTTTTTTTTGTTTTTTTTGGTTT
Found at i:67066 original size:10 final size:10
Alignment explanation
Indices: 67020--67096 Score: 79
Period size: 10 Copynumber: 7.8 Consensus size: 10
67010 CCCCTTTCTA
* *
67020 TTTTTTCTTA
1 TTTTTTTTTG
67030 TTTTTTTCTTG
1 TTTTTTT-TTG
* *
67041 GTTTTTTCT-
1 TTTTTTTTTG
67050 TTTTTTTTTG
1 TTTTTTTTTG
67060 --TTTTTTTG
1 TTTTTTTTTG
67068 TTTTTTTTTG
1 TTTTTTTTTG
67078 TTTTTTTTTTG
1 -TTTTTTTTTG
67089 TTTTTTTT
1 TTTTTTTT
67097 GGGGTATGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
8 8 0.14
9 7 0.12
10 23 0.41
11 18 0.32
ACGTcount: A:0.01, C:0.04, G:0.08, T:0.87
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:67094 original size:19 final size:19
Alignment explanation
Indices: 67020--67097 Score: 86
Period size: 18 Copynumber: 3.9 Consensus size: 19
67010 CCCCTTTCTA
*
67020 TTTTTTCTTATTTTTTTCTTGG
1 TTTTTTC-T-TTTTTTT-TTGT
67042 TTTTTTCTTTTTTTTTTGT
1 TTTTTTCTTTTTTTTTTGT
*
67061 TTTTTT-GTTTTTTTTTGT
1 TTTTTTCTTTTTTTTTTGT
*
67079 TTTTTTTTTGTTTTTTTTG
1 TTTTTTCTT-TTTTTTTTG
67098 GGGTATGAAG
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
18 17 0.33
19 10 0.20
20 16 0.31
21 1 0.02
22 7 0.14
ACGTcount: A:0.01, C:0.04, G:0.09, T:0.86
Consensus pattern (19 bp):
TTTTTTCTTTTTTTTTTGT
Found at i:76938 original size:19 final size:18
Alignment explanation
Indices: 76914--76976 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
76904 AACAAGTAAC
76914 TGTATCGATACATAAGGGT
1 TGTATCGATACATAA-GGT
76933 TGTATCGATAC--AA---
1 TGTATCGATACATAAGGT
76946 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAG-GT
76965 TGTATCGATACA
1 TGTATCGATACA
76977 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (18 bp):
TGTATCGATACATAAGGT
Found at i:76951 original size:13 final size:13
Alignment explanation
Indices: 76933--76957 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76923 ACATAAGGGT
76933 TGTATCGATACAA
1 TGTATCGATACAA
76946 TGTATCGATACA
1 TGTATCGATACA
76958 TAAGTGTTGT
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:76955 original size:32 final size:32
Alignment explanation
Indices: 76914--76984 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
76904 AACAAGTAAC
76914 TGTATCGATACATAAGGGTTGTATCGATACAA
1 TGTATCGATACATAAGGGTTGTATCGATACAA
*
76946 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGGGTTGTATCGATACAA
76978 TGTATCG
1 TGTATCG
76985 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGGGTTGTATCGATACAA
Found at i:91032 original size:8 final size:7
Alignment explanation
Indices: 91011--91119 Score: 73
Period size: 8 Copynumber: 14.9 Consensus size: 7
91001 GCATCCTCCG
91011 CAAAAAA
1 CAAAAAA
91018 -AAAAAA
1 CAAAAAA
91024 CAAACAAA
1 CAAA-AAA
91032 CAAAAAA
1 CAAAAAA
*
91039 GAGAAAAA
1 CA-AAAAA
*
91047 GAAAAAA
1 CAAAAAA
91054 -AAGAAAA
1 CAA-AAAA
91061 CAAATAAA
1 CAAA-AAA
91069 CAAAAAGTAA
1 C-AAAA--AA
91079 CAAAAAA
1 CAAAAAA
*
91086 -AACAAA
1 CAAAAAA
91092 CAAACAAA
1 CAAA-AAA
91100 CAAGAAAA
1 CAA-AAAA
*
91108 C-AACAA
1 CAAAAAA
91114 CAAAAA
1 CAAAAA
91120 GGGTCCGGAT
Statistics
Matches: 84, Mismatches: 5, Indels: 26
0.73 0.04 0.23
Matches are distributed among these distances:
6 17 0.20
7 25 0.30
8 31 0.37
9 8 0.10
10 3 0.04
ACGTcount: A:0.80, C:0.13, G:0.06, T:0.02
Consensus pattern (7 bp):
CAAAAAA
Found at i:91084 original size:31 final size:33
Alignment explanation
Indices: 91015--91120 Score: 103
Period size: 31 Copynumber: 3.2 Consensus size: 33
91005 CCTCCGCAAA
* * *
91015 AAAAAAAAACAAACAAACAAAAAAGAGAAA-AAGA
1 AAAAAAAGACAAACAAACAAACAAGA-AAACAA-C
* **
91049 AAAAAAAGA-AAACAAATAAACAA-AAAGTAAC
1 AAAAAAAGACAAACAAACAAACAAGAAAACAAC
91080 AAAAAAA-ACAAACAAACAAACAAGAAAACAAC
1 AAAAAAAGACAAACAAACAAACAAGAAAACAAC
91112 AACAAAAAG
1 AA-AAAAAG
91121 GGTCCGGATA
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
30 1 0.02
31 22 0.37
32 11 0.19
33 17 0.29
34 8 0.14
ACGTcount: A:0.79, C:0.12, G:0.07, T:0.02
Consensus pattern (33 bp):
AAAAAAAGACAAACAAACAAACAAGAAAACAAC
Found at i:91087 original size:27 final size:28
Alignment explanation
Indices: 91011--91107 Score: 90
Period size: 28 Copynumber: 3.4 Consensus size: 28
91001 GCATCCTCCG
* *
91011 CAAAAA-AAAAAAACAAACAAACAAAAAAGA
1 CAAAAAGAAAAAAA-AGA-AAACAAACAA-A
* *
91041 GAAAAAGAAAAAAAAGAAAACAAATAAA
1 CAAAAAGAAAAAAAAGAAAACAAACAAA
* *
91069 CAAAAAGTAACAAAA-AAAACAAACAAA
1 CAAAAAGAAAAAAAAGAAAACAAACAAA
91096 CAAACAAGAAAA
1 CAAA-AAGAAAA
91108 CAACAACAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
27 15 0.27
28 18 0.32
29 9 0.16
30 7 0.12
31 7 0.12
ACGTcount: A:0.80, C:0.11, G:0.06, T:0.02
Consensus pattern (28 bp):
CAAAAAGAAAAAAAAGAAAACAAACAAA
Found at i:92629 original size:28 final size:27
Alignment explanation
Indices: 92547--92641 Score: 111
Period size: 28 Copynumber: 3.4 Consensus size: 27
92537 GACGTTCCTC
*
92547 CCCTTTTCAAAGCCCACAAATCAGTAG
1 CCCTTTTCAAAGCCCACAAATCAGTGG
*
92574 CACTCTTTCAAAGCCCACAAATCAGTGG
1 CCCT-TTTCAAAGCCCACAAATCAGTGG
* * *
92602 CACCATTTTCGAAGCCCAC-AGTTAGTGG
1 C-CC-TTTTCAAAGCCCACAAATCAGTGG
92630 CCCTTTTCAAAG
1 CCCTTTTCAAAG
92642 TCCATAATTC
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
26 8 0.14
27 5 0.09
28 31 0.53
29 13 0.22
30 1 0.02
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (27 bp):
CCCTTTTCAAAGCCCACAAATCAGTGG
Found at i:92716 original size:34 final size:35
Alignment explanation
Indices: 92650--92717 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
92640 AGTCCATAAT
* *
92650 TCCGTGGCACTCTTTTTCTTTTGTAAGCCCACAAC
1 TCCGTGGCACACTTTTTCCTTTGTAAGCCCACAAC
92685 TCCGTGGCACACTTTTTCCTTT-TAAGCCCACAA
1 TCCGTGGCACACTTTTTCCTTTGTAAGCCCACAA
92718 GTTAGTGGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 11 0.35
35 20 0.65
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.35
Consensus pattern (35 bp):
TCCGTGGCACACTTTTTCCTTTGTAAGCCCACAAC
Found at i:92726 original size:34 final size:35
Alignment explanation
Indices: 92653--92734 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 35
92643 CCATAATTCC
* * *
92653 GTGGCACTCTTTTTCTTTTGTAAGCCCACAACTCC
1 GTGGCACACTTTTTCCTTTGTAAGCCCACAACTCA
* *
92688 GTGGCACACTTTTTCCTTT-TAAGCCCACAAGTTA
1 GTGGCACACTTTTTCCTTTGTAAGCCCACAACTCA
*
92722 GTGGCACCCTTTT
1 GTGGCACACTTTT
92735 CAAAAGCCCA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
34 24 0.59
35 17 0.41
ACGTcount: A:0.18, C:0.29, G:0.16, T:0.37
Consensus pattern (35 bp):
GTGGCACACTTTTTCCTTTGTAAGCCCACAACTCA
Found at i:92743 original size:30 final size:30
Alignment explanation
Indices: 92708--92804 Score: 137
Period size: 30 Copynumber: 3.3 Consensus size: 30
92698 TTTTCCTTTT
*
92708 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTTAGTGGCAACCTTTTCAA
*
92738 AAGCCCACAAGTCAGTGGCAACC--TTCAA
1 AAGCCCACAAGTTAGTGGCAACCTTTTCAA
* *
92766 AAGCACACAAGTTGGT-GCAACCTTTTCAA
1 AAGCCCACAAGTTAGTGGCAACCTTTTCAA
92795 AAGCCCACAA
1 AAGCCCACAA
92805 AAGTTGGTGG
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 6 0.10
28 18 0.31
29 14 0.24
30 21 0.36
ACGTcount: A:0.35, C:0.30, G:0.16, T:0.19
Consensus pattern (30 bp):
AAGCCCACAAGTTAGTGGCAACCTTTTCAA
Found at i:92952 original size:101 final size:99
Alignment explanation
Indices: 92825--93417 Score: 710
Period size: 101 Copynumber: 5.9 Consensus size: 99
92815 CATCTTCTCC
* ** *
92825 TAAGCCCAATATCGCTAGCCTTGAATCAGTGTATTGGCACCTTCATCTTTAAGACCGATGTCGTT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGTT
* * *
92890 GGCCTTGGATCAGCACATCGGCACCTCAACCATCTT
66 GGCCTTGAATCAGCACATTGGCACCTC--TCATCTT
* * * ** * *
92926 TAAGACCAATGTTGCTGGCCTTGAATCAGCACGTTGGCATCTTCATCTTGAAGACCAATGTCGTT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGTT
*
92991 AGCCTTGAATCAGCACATTGGCACCT-TCATCTT
66 GGCCTTGAATCAGCACATTGGCACCTCTCATCTT
* *
93024 TAAGCCCAATATCGCTGGCCTTGAATCAGCATGTTGGCGCCTTCTTTATCTTTAAGACCAATGTC
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC---ATCTTTAAGACCAATGTC
* * *
93089 GCTGGCCTTGAATCAGCACGTTGGCATCT-TCATCTT
63 GTTGGCCTTGAATCAGCACATTGGCACCTCTCATCTT
*
93125 TAAGCCCAATATCGCTGGCCTTGAATCAGCATGTTGGCACCTTCTTCATCTTTAAGACCAATGTC
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C--CTTCATCTTTAAGACCAATGTC
* * *
93190 GTTGGTCTTGAATCAGCACGTTGGCATCT-TCATCTT
63 GTTGGCCTTGAATCAGCACATTGGCACCTCTCATCTT
* * * ***
93226 TAAGTCCAATATCGCTGGCCTTGAATCAGCATACTGGCGCCTTTGCCATCTTTAAGTTTAATGTC
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT--CATCTTTAAGACCAATGTC
*
93291 GCTGGCCTTGAATCAGCACATTGGCACCT-TCATCTT
63 GTTGGCCTTGAATCAGCACATTGGCACCTCTCATCTT
* *
93327 TAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAA-ACCCAATGT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T--TCATCTTTAAGA-CCAATGT
*
93391 CGTTAGCCTTGAATCAGCACATTGGCA
62 CGTTGGCCTTGAATCAGCACATTGGCA
93418 TTCTTCTCAT
Statistics
Matches: 432, Mismatches: 48, Indels: 24
0.86 0.10 0.05
Matches are distributed among these distances:
98 45 0.10
99 2 0.00
100 1 0.00
101 378 0.88
102 1 0.00
103 1 0.00
104 4 0.01
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (99 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGTT
GGCCTTGAATCAGCACATTGGCACCTCTCATCTT
Found at i:93101 original size:150 final size:150
Alignment explanation
Indices: 92812--93423 Score: 671
Period size: 150 Copynumber: 4.1 Consensus size: 150
92802 CAAAAGTTGG
* ***
92812 TGGCATCTTC-TC-CTAAGCCCAATATCGCTAGCCTTGAATCAGTGTATTGGCACCTTCATCTTT
1 TGGCATCTTCATCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCACATTGGCACCTTCATCTTT
* * * * * ** *
92875 AAGACCGATGTCGTTGGCCTTGGATCAGCACATCGGCACC-TCAACCATCTTTAAGACCAATGTT
66 AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTC-TTCATCTTTAAGACCAATGTC
*
92939 GCTGGCCTTGAATCAGCACGT
130 GCTGGCCTTGAATCAGCACAT
* * * *
92960 TGGCATCTTCATCTTGAAGACCAATGTCGTTAGCCTTGAATCAGCACATTGGCACCTTCATCTTT
1 TGGCATCTTCATCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCACATTGGCACCTTCATCTTT
* ** * *
93025 AAGCCCAATATCGCTGGCCTTGAATCAGCATGTTGGCGCCTTCTTTATCTTTAAGACCAATGTCG
66 AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCTTCATCTTTAAGACCAATGTCG
*
93090 CTGGCCTTGAATCAGCACGT
131 CTGGCCTTGAATCAGCACAT
* **
93110 TGGCATCTTCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATGTTGGCACCTTCTTCATC
1 TGGCATCTTCATCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCACATTGGCA-C--CTTCATC
* * * * * *
93175 TTTAAGACCAATGTCGTTGGTCTTGAATCAGCACGTTGGCA---TCTTCATCTTTAAGTCCAATA
63 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCTTCATCTTTAAGACCAATG
* *
93237 TCGCTGGCCTTGAATCAGCATAC
128 TCGCTGGCCTTGAATCAGCACAT
** *** * *
93260 TGGCGCCTTTGCCATCTTTAAGTTTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TGGCATC-TT--CATCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCACATTGGCACCTTCATC
* * * *
93325 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAA-ACCCAAT
63 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCTTCATCTTTAAGA-CCAAT
* *
93389 GTCGTTAGCCTTGAATCAGCACAT
127 GTCGCTGGCCTTGAATCAGCACAT
93413 TGGCATTCTTC
1 TGGCA-TCTTC
93424 TCATCTTCAA
Statistics
Matches: 386, Mismatches: 64, Indels: 25
0.81 0.13 0.05
Matches are distributed among these distances:
148 10 0.03
149 2 0.01
150 243 0.63
151 6 0.02
152 1 0.00
153 123 0.32
154 1 0.00
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.32
Consensus pattern (150 bp):
TGGCATCTTCATCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCACATTGGCACCTTCATCTTT
AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCTTCATCTTTAAGACCAATGTCG
CTGGCCTTGAATCAGCACAT
Found at i:93418 original size:202 final size:200
Alignment explanation
Indices: 92812--93423 Score: 806
Period size: 202 Copynumber: 3.0 Consensus size: 200
92802 CAAAAGTTGG
* * ** *
92812 TGGCATCTTC-TC-CTAAGCCCAATATCGCTAGCCTTGAATCAGTGTATTGGCACC-TTCATCTT
1 TGGCATCTTCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTCATCTT
* * * * * * *
92874 TAAGACCGATGTCGTTGGCCTTGGATCAGCACATCGGCACCTCAACCATCTTTAAGACCAATGTT
66 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT---TCATCTTTAAGACCAATATC
* *
92939 GCTGGCCTTGAATCAGCACGTTGGCA---TCTTCATCTTGAAGACCAATGTCGTTAGCCTTGAAT
128 GCTGGCCTTGAATCAGCATGTTGGCACCTTCTTCATCTTTAAGACCAATGTCGTTAGCCTTGAAT
93001 CAGCACAT
193 CAGCACAT
* * *
93009 TGGCACCTTCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATGTTGGCGCCTTCTTTATC
1 TGGCATCTTCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCC-T-TTCATC
* * *
93074 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACGTTGGCATCTTCATCTTTAAGCCCAATATCG
64 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATATCG
* *
93139 CTGGCCTTGAATCAGCATGTTGGCACCTTCTTCATCTTTAAGACCAATGTCGTTGGTCTTGAATC
129 CTGGCCTTGAATCAGCATGTTGGCACCTTCTTCATCTTTAAGACCAATGTCGTTAGCCTTGAATC
*
93204 AGCACGT
194 AGCACAT
* *
93211 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATACTGGCGCCTTTGCCATC
1 TGGCATCTTCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTT--CATC
*** * *
93276 TTTAAGTTTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATCG
64 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATATCG
* *
93341 CTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAA-ACCCAATGTCGTTAGCCTTGAAT
129 CTGGCCTTGAATCAGCATGTTGGCACCTTCTTCATCTTTAAGA-CCAATGTCGTTAGCCTTGAAT
93405 CAGCACAT
193 CAGCACAT
93413 TGGCATTCTTC
1 TGGCA-TCTTC
93424 TCATCTTCAA
Statistics
Matches: 363, Mismatches: 40, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
197 9 0.02
198 2 0.01
199 77 0.21
200 2 0.01
201 2 0.01
202 266 0.73
203 5 0.01
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.32
Consensus pattern (200 bp):
TGGCATCTTCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTCATCTT
TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATATCGCT
GGCCTTGAATCAGCATGTTGGCACCTTCTTCATCTTTAAGACCAATGTCGTTAGCCTTGAATCAG
CACAT
Found at i:94192 original size:19 final size:18
Alignment explanation
Indices: 94168--94230 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
94158 AACAAGTAAC
94168 TGTATCGATACATAAGGGT
1 TGTATCGATACATAA-GGT
*
94187 TGTATCGCTAC--AA---
1 TGTATCGATACATAAGGT
94200 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAG-GT
94219 TGTATCGATACA
1 TGTATCGATACA
94231 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (18 bp):
TGTATCGATACATAAGGT
Found at i:94209 original size:32 final size:32
Alignment explanation
Indices: 94168--94238 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
94158 AACAAGTAAC
*
94168 TGTATCGATACATAAGGGTTGTATCGCTACAA
1 TGTATCGATACATAAGGGTTGTATCGATACAA
*
94200 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGGGTTGTATCGATACAA
94232 TGTATCG
1 TGTATCG
94239 CTACGAAGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGGGTTGTATCGATACAA
Found at i:97516 original size:19 final size:20
Alignment explanation
Indices: 97492--97531 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
97482 AAATAATGGG
*
97492 AATGAATAGCAA-AAAAAAA
1 AATGAACAGCAATAAAAAAA
*
97511 AATGAACATCAATAAAAAAA
1 AATGAACAGCAATAAAAAAA
97531 A
1 A
97532 GAGTGGCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.12
Consensus pattern (20 bp):
AATGAACAGCAATAAAAAAA
Found at i:101390 original size:12 final size:11
Alignment explanation
Indices: 101373--101443 Score: 51
Period size: 12 Copynumber: 6.5 Consensus size: 11
101363 AAGAAAAGAG
101373 AGGAGGGATGAT
1 AGGAGGGA-GAT
*
101385 AGGAGGAGAGAC
1 AGGAGG-GAGAT
101397 AGGA--GAGAT
1 AGGAGGGAGAT
*
101406 AGTA--GAGAT
1 AGGAGGGAGAT
101415 AGGAGGGATGAT
1 AGGAGGGA-GAT
*
101427 AGGAGGAGAGAC
1 AGGAGG-GAGAT
101439 AGGAG
1 AGGAG
101444 AGATAATAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
9 15 0.31
11 2 0.04
12 28 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.48, T:0.10
Consensus pattern (11 bp):
AGGAGGGAGAT
Found at i:101419 original size:42 final size:42
Alignment explanation
Indices: 101369--101476 Score: 189
Period size: 42 Copynumber: 2.6 Consensus size: 42
101359 GAGAAAGAAA
*
101369 AGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAGTAG
1 AGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAATAG
*
101411 AGATAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAATAG
1 AGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAATAG
*
101453 AGAGAGGAGGGATGACAGGAGGAG
1 AGAGAGGAGGGATGATAGGAGGAG
101477 GAGAGAAGAA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.41, C:0.03, G:0.47, T:0.09
Consensus pattern (42 bp):
AGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAATAG
Found at i:107695 original size:20 final size:21
Alignment explanation
Indices: 107672--107723 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
107662 AGATTGCACA
**
107672 GTATCGATACATGACCA-AAT
1 GTATCGATACATGAAAAGAAT
*
107692 GTATCGATACTTGAAAAGAAT
1 GTATCGATACATGAAAAGAAT
107713 GTATCGATACA
1 GTATCGATACA
107724 GGTCATTGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.27
Consensus pattern (21 bp):
GTATCGATACATGAAAAGAAT
Found at i:107825 original size:33 final size:32
Alignment explanation
Indices: 107767--107830 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
107757 TAACTATTTG
*
107767 TATCGATACACACAATATGTATCGATACATTA
1 TATCGATACACACAAAATGTATCGATACATTA
*
107799 TATCGATACATCCCAAAATGTATCGATACATT
1 TATCGATACA-CACAAAATGTATCGATACATT
107831 GGCTTGTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 10 0.34
33 19 0.66
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (32 bp):
TATCGATACACACAAAATGTATCGATACATTA
Found at i:112608 original size:79 final size:78
Alignment explanation
Indices: 112449--112680 Score: 189
Period size: 79 Copynumber: 3.0 Consensus size: 78
112439 TACTTAAATA
* * * * * * * * * * *
112449 ACCCTACTGGACATGTTTAACCATGAAAATTCCCGA-ATGATCCTAGAGACTCAATTTTACGGTA
1 ACCCTAATGCACATATTTAAACATGAAAATT-CCTACATGACCCTAAAAATTCAGTTTTAAGGTA
*
112513 CTTTTATGTAAGTG
65 CTTTTATCTAAGTG
** * *
112527 ACCCTAATGCACATATTTTGACAT-AAAAGTTCCTACATGACCCTAAAAACTTTATTTTTAAGGT
1 ACCCTAATGCACATATTTAAACATGAAAA-TTCCTACATGACCCTAAAAA-TTCAGTTTTAAGGT
*
112591 ACTTTTATCTAATTG
64 ACTTTTATCTAAGTG
* * * ** * **
112606 ACCTTAATGGACATGTTTAAATGTGAAAATTCCTAGATGACCCTAAGGATTCAGTTTTAAGGTAC
1 ACCCTAATGCACATATTTAAACATGAAAATTCCTACATGACCCTAAAAATTCAGTTTTAAGGTAC
*
112671 TATTATCTAA
66 TTTTATCTAA
112681 ATGGTCCCAA
Statistics
Matches: 121, Mismatches: 29, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
77 7 0.06
78 53 0.44
79 57 0.47
80 4 0.03
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (78 bp):
ACCCTAATGCACATATTTAAACATGAAAATTCCTACATGACCCTAAAAATTCAGTTTTAAGGTAC
TTTTATCTAAGTG
Found at i:112826 original size:59 final size:58
Alignment explanation
Indices: 112677--112896 Score: 147
Period size: 59 Copynumber: 3.7 Consensus size: 58
112667 GTACTATTAT
* **
112677 CTAAATGGTCCCAAAATGCAT-AGAAAATGCTAAAGTGACCCTAGGTCATGTAAAATAAC
1 CTAAATGGTCCTAAAATGCATGA-AAAATGCTAAA-TGACCCTAAATCATGTAAAATAAC
* * * * * ** * *
112736 CTAAA-AGACTTTAAAATGTATGGAATTTGCTAAATGGCCCTTAAATTATGTAAAATAAC
1 CTAAATGGTC-CTAAAATGCATGAAAAATGCTAAATGACCC-TAAATCATGTAAAATAAC
* *** * * **
112795 TTAAATGGTCCTAAAATGCATGAAAAATGCTAAATAGTTTCTAGATTACATAAAATAAC
1 CTAAATGGTCCTAAAATGCATGAAAAATGCTAAAT-GACCCTAAATCATGTAAAATAAC
* * ** *
112854 CTAAATGATTCTAAAATTTATGAGAAATGCTAAATGATCCCTA
1 CTAAATGGTCCTAAAATGCATGAAAAATGCTAAATGA-CCCTA
112897 GATTACATAA
Statistics
Matches: 120, Mismatches: 35, Indels: 12
0.72 0.21 0.07
Matches are distributed among these distances:
58 8 0.07
59 108 0.90
60 4 0.03
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (58 bp):
CTAAATGGTCCTAAAATGCATGAAAAATGCTAAATGACCCTAAATCATGTAAAATAAC
Found at i:112898 original size:59 final size:59
Alignment explanation
Indices: 112701--112910 Score: 178
Period size: 59 Copynumber: 3.6 Consensus size: 59
112691 AATGCATAGA
* * ** *
112701 AAATGCTAAAGTGA-CCCTAGGTCATGTAAAATAACCTAAAAGACTT-TAAAATGTATG-G
1 AAATGCTAAA-TGATCCCTAGATTACATAAAATAACCTAAATGA-TTCTAAAATGTATGAG
* * * ** * * * * *
112759 AATTTGCTAAATG-GCCCTTAAATTATGTAAAATAACTTAAATGGTCCTAAAATGCATGAA
1 AA-ATGCTAAATGATCCC-TAGATTACATAAAATAACCTAAATGATTCTAAAATGTATGAG
** *
112819 AAATGCTAAAT-AGTTTCTAGATTACATAAAATAACCTAAATGATTCTAAAATTTATGAG
1 AAATGCTAAATGA-TCCCTAGATTACATAAAATAACCTAAATGATTCTAAAATGTATGAG
112878 AAATGCTAAATGATCCCTAGATTACATAAAATA
1 AAATGCTAAATGATCCCTAGATTACATAAAATA
112911 CCATAAAATA
Statistics
Matches: 119, Mismatches: 25, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
58 8 0.07
59 107 0.90
60 4 0.03
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (59 bp):
AAATGCTAAATGATCCCTAGATTACATAAAATAACCTAAATGATTCTAAAATGTATGAG
Found at i:113104 original size:22 final size:23
Alignment explanation
Indices: 113061--113104 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
113051 ACACAAGATT
*
113061 AAAATAAAATAATATAATATTAA
1 AAAATAAAATAATATAAAATTAA
113084 AAAAT-AAAT-ATATCAAAATTA
1 AAAATAAAATAATAT-AAAATTA
113105 TGTAACGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 10 0.53
23 5 0.26
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (23 bp):
AAAATAAAATAATATAAAATTAA
Found at i:114512 original size:21 final size:21
Alignment explanation
Indices: 114483--114523 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
114473 AAGGGTTAAA
114483 ACCCTAGAAAGTATCGATACAG
1 ACCCTAG-AAGTATCGATACAG
114505 ACCC-AGAAGTATCGATACA
1 ACCCTAGAAGTATCGATACA
114524 TATTGCTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.68
21 2 0.11
22 4 0.21
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (21 bp):
ACCCTAGAAGTATCGATACAG
Found at i:114550 original size:13 final size:13
Alignment explanation
Indices: 114532--114556 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
114522 CATATTGCTT
114532 TGTATCGATACAA
1 TGTATCGATACAA
114545 TGTATCGATACA
1 TGTATCGATACA
114557 TGATCTTGGC
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:115078 original size:23 final size:23
Alignment explanation
Indices: 115048--115091 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
115038 GCATTCAACC
115048 TTGGGTTACAATCTCTT-AAGAAT
1 TTGGGTTACAAT-TCTTGAAGAAT
*
115071 TTGGGTTATAATTCTTGAAGA
1 TTGGGTTACAATTCTTGAAGA
115092 GATTGAGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (23 bp):
TTGGGTTACAATTCTTGAAGAAT
Found at i:121554 original size:79 final size:79
Alignment explanation
Indices: 121454--121674 Score: 220
Period size: 79 Copynumber: 2.8 Consensus size: 79
121444 ACAACGGGGC
* * *
121454 TGGAGTATCCTCGATTATGAAAAATCGGTATTTT-GAAAATAAAATCGGGATTGGAGTATCCCC-
1 TGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTAG-AAATAAAATCGGGATTGGAGTATCCCCA
121517 TAAAAAATAACAGG-GT
65 T-AAAAATAAC-GGTGT
* * * **
121533 TGGAGTATCCCCAATTGTGAAAAATCGATGCTTTAGAAAT-AAGGCTGAGG-TTGGAGTATCCCC
1 TGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTAGAAATAAAATC-G-GGATTGGAGTATCCCC
*
121596 ATGAAAATAACGGTGT
64 ATAAAAATAACGGTGT
* * ** *
121612 TGGAGTATCCCCGACTGTGAGAAATTAGTGTTTTAGAAATAAAATC-GGAGTTGAAGTATCCCC
1 TGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTAGAAATAAAATCGGGA-TTGGAGTATCCCC
121675 GATTGTGAAA
Statistics
Matches: 115, Mismatches: 19, Indels: 16
0.77 0.13 0.11
Matches are distributed among these distances:
77 2 0.02
78 5 0.04
79 101 0.88
80 7 0.06
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (79 bp):
TGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTAGAAATAAAATCGGGATTGGAGTATCCCCAT
AAAAATAACGGTGT
Found at i:121673 original size:51 final size:51
Alignment explanation
Indices: 121610--121725 Score: 171
Period size: 51 Copynumber: 2.3 Consensus size: 51
121600 AAATAACGGT
* * * *
121610 GTTGGAGTATCCCCGACTGTGAGAAATTAGTGTTTTAGAAATAAAATCG-G
1 GTTGAAGTATCCCCGACTGTGAAAAATTAGTATTTTAAAAATAAAATCGAG
*
121660 AGTTGAAGTATCCCCGATTGTGAAAAATTAGTATTTTAAAAATAAAATCGAG
1 -GTTGAAGTATCCCCGACTGTGAAAAATTAGTATTTTAAAAATAAAATCGAG
121712 GTTGAAGTATCCCC
1 GTTGAAGTATCCCC
121726 TCGAAAAAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 58 0.98
52 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (51 bp):
GTTGAAGTATCCCCGACTGTGAAAAATTAGTATTTTAAAAATAAAATCGAG
Found at i:121856 original size:28 final size:28
Alignment explanation
Indices: 121816--121889 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
121806 GATACAAAGC
* *
121816 CGGGGTTAGAGTATTTCCTCGA-AAATAA
1 CGGGGTTGGAGTA-TTCCCCGAGAAATAA
121844 CGGGGTTGGAGTA-TCCCCGATGAAATAA
1 CGGGGTTGGAGTATTCCCCGA-GAAATAA
121872 CGGGGTTGGAGTA-TCCCC
1 CGGGGTTGGAGTATTCCCC
121890 AATTGTGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 6 0.14
28 36 0.86
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATTCCCCGAGAAATAA
Found at i:124186 original size:20 final size:20
Alignment explanation
Indices: 124161--124220 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
124151 AAAATGCCTG
124161 AATGTATCGATACATTGTAA
1 AATGTATCGATACATTGTAA
***
124181 AATGTATCGATACATCTGGGT
1 AATGTATCGATACAT-TGTAA
*
124202 AATGTATCGATACAATGTA
1 AATGTATCGATACATTGTA
124221 TCGATACATC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGTAA
Found at i:124207 original size:21 final size:20
Alignment explanation
Indices: 124161--124215 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 20
124151 AAAATGCCTG
*
124161 AATGTATCGATACATTGTAA
1 AATGTATCGATACATTGGAA
**
124181 AATGTATCGATACATCTGGGT
1 AATGTATCGATACAT-TGGAA
124202 AATGTATCGATACA
1 AATGTATCGATACA
124216 ATGTATCGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGGAA
Found at i:124220 original size:13 final size:13
Alignment explanation
Indices: 124202--124265 Score: 66
Period size: 13 Copynumber: 5.3 Consensus size: 13
124192 ACATCTGGGT
124202 AATGTATCGATAC
1 AATGTATCGATAC
124215 AATGTATCGATAC
1 AATGTATCGATAC
* * *
124228 -A--TCTGGGT--
1 AATGTATCGATAC
124236 AATGTATCGATAC
1 AATGTATCGATAC
124249 AATGTATCGATAC
1 AATGTATCGATAC
124262 AATG
1 AATG
124266 AACAGTGTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
9 1 0.03
10 4 0.10
11 4 0.10
12 1 0.03
13 30 0.75
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:124224 original size:34 final size:34
Alignment explanation
Indices: 124181--124262 Score: 164
Period size: 34 Copynumber: 2.4 Consensus size: 34
124171 TACATTGTAA
124181 AATGTATCGATACATCTGGGTAATGTATCGATAC
1 AATGTATCGATACATCTGGGTAATGTATCGATAC
124215 AATGTATCGATACATCTGGGTAATGTATCGATAC
1 AATGTATCGATACATCTGGGTAATGTATCGATAC
124249 AATGTATCGATACA
1 AATGTATCGATACA
124263 ATGAACAGTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (34 bp):
AATGTATCGATACATCTGGGTAATGTATCGATAC
Found at i:124276 original size:20 final size:20
Alignment explanation
Indices: 124247--124303 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
124237 ATGTATCGAT
124247 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
* *
124267 ACAGTGTATCGATACATTGA
1 ACAATGTATCGATACAATGA
124287 ACAATGTATCGATACAA
1 ACAATGTATCGATACAA
124304 ATTGTGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:125109 original size:33 final size:34
Alignment explanation
Indices: 125045--125109 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
125035 CATCATTACT
*
125045 TTTTATTTTTCATCAAAATCTTCATCAAAAACAC
1 TTTTATTTTCCATCAAAATCTTCATCAAAAACAC
* * *
125079 TTTTA-TTTCCATCAAATTCTTCTTCCAAAAC
1 TTTTATTTTCCATCAAAATCTTCATCAAAAAC
125110 TTGCCGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 22 0.81
34 5 0.19
ACGTcount: A:0.34, C:0.23, G:0.00, T:0.43
Consensus pattern (34 bp):
TTTTATTTTCCATCAAAATCTTCATCAAAAACAC
Found at i:126292 original size:16 final size:16
Alignment explanation
Indices: 126271--126306 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
126261 ACTTTTATTT
**
126271 CTTTGCTTGTTTTTAA
1 CTTTGCTTGTACTTAA
126287 CTTTGCTTGTACTTAA
1 CTTTGCTTGTACTTAA
126303 CTTT
1 CTTT
126307 TCTTAATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.17, G:0.11, T:0.58
Consensus pattern (16 bp):
CTTTGCTTGTACTTAA
Found at i:126527 original size:20 final size:21
Alignment explanation
Indices: 126502--126559 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 21
126492 AAAGGGGAGG
*
126502 AATTTT-TTAAGGGGGAGAAT
1 AATTTTATTAAGGGGGAGAAA
* *
126522 AATTTTATTAA-AGGGAAAAA
1 AATTTTATTAAGGGGGAGAAA
126542 AATTTTATTAAGGGGGAG
1 AATTTTATTAAGGGGGAG
126560 TTATAAATTG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 23 0.74
21 8 0.26
ACGTcount: A:0.41, C:0.00, G:0.26, T:0.33
Consensus pattern (21 bp):
AATTTTATTAAGGGGGAGAAA
Found at i:135144 original size:20 final size:19
Alignment explanation
Indices: 135095--135152 Score: 89
Period size: 19 Copynumber: 3.0 Consensus size: 19
135085 TTAGTATCGA
135095 TACATTGTATCAATACATG
1 TACATTGTATCAATACATG
* *
135114 TTCACTGTATCAATACATG
1 TACATTGTATCAATACATG
135133 TACAATTGTATCAATACATG
1 TAC-ATTGTATCAATACATG
135153 AAATTGGCAG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.36
Consensus pattern (19 bp):
TACATTGTATCAATACATG
Found at i:135206 original size:20 final size:19
Alignment explanation
Indices: 135181--135254 Score: 105
Period size: 20 Copynumber: 3.7 Consensus size: 19
135171 CTACCATTGT
135181 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
135201 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGA-GAA
135221 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGA-GAA
135241 TTGTATCGATACAT
1 TTGTATCGATACAT
135255 TGCTTCAAAC
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
20 50 0.96
21 1 0.02
22 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:136861 original size:3 final size:3
Alignment explanation
Indices: 136846--136879 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
136836 AACCATCAAA
* *
136846 GAT GAT GAA GAT GAT GAT GAT GAT GAC GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
136880 GTGACTCGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.35, C:0.03, G:0.35, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:144947 original size:37 final size:37
Alignment explanation
Indices: 144897--144973 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
144887 AAACCCTTTG
*
144897 TATGTATCGATACA-CATCCAGATGTATCGATACATTA
1 TATGTATCGATACATCATAC-GATGTATCGATACATTA
* * **
144934 TATGTATGGATACATTATACTTTGTATCGATACATTA
1 TATGTATCGATACATCATACGATGTATCGATACATTA
144971 TAT
1 TAT
144974 CGATACATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 31 0.91
38 3 0.09
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (37 bp):
TATGTATCGATACATCATACGATGTATCGATACATTA
Found at i:144965 original size:20 final size:17
Alignment explanation
Indices: 144918--144973 Score: 76
Period size: 17 Copynumber: 3.1 Consensus size: 17
144908 ACACATCCAG
144918 ATGTATCGATACATTAT
1 ATGTATCGATACATTAT
*
144935 ATGTATGGATACATTAT
1 ATGTATCGATACATTAT
144952 ACTTTGTATCGATACATTAT
1 A---TGTATCGATACATTAT
144972 AT
1 AT
144974 CGATACATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 18 0.53
20 16 0.47
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (17 bp):
ATGTATCGATACATTAT
Found at i:145011 original size:20 final size:19
Alignment explanation
Indices: 144919--145022 Score: 73
Period size: 20 Copynumber: 5.8 Consensus size: 19
144909 CACATCCAGA
*
144919 TGTATCGATACATTAT-A-
1 TGTATCGATACATGATCAT
* * *
144936 TGTATGGATACATTATACTT
1 TGTATCGATACATGAT-CAT
144956 TGTATCGATACAT--T-A-
1 TGTATCGATACATGATCAT
144971 --TATCGATACATGATCAT
1 TGTATCGATACATGATCAT
144988 TGTATCGATACATGCA-CAAT
1 TGTATCGATACATG-ATC-AT
*
145008 TGTATCAATACATGA
1 TGTATCGATACATGA
145023 AACTGGCAGT
Statistics
Matches: 71, Mismatches: 5, Indels: 20
0.74 0.05 0.21
Matches are distributed among these distances:
13 11 0.15
15 1 0.01
16 1 0.01
17 15 0.21
18 1 0.01
19 14 0.20
20 28 0.39
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGATCAT
Found at i:145088 original size:33 final size:32
Alignment explanation
Indices: 145051--145115 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 32
145041 TACCACTGTT
145051 TGTATCGATACATG-GCACATTGTATCGATACAA
1 TGTATCGATACATGAG-A-ATTGTATCGATACAA
* *
145084 TGTATTGATGCATGAAGAATTGTATCGATACA
1 TGTATCGATACATG-AGAATTGTATCGATACA
145116 TTGTCCCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (32 bp):
TGTATCGATACATGAGAATTGTATCGATACAA
Done.