Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000813.1 Hibiscus syriacus cultivar Beakdansim tig00001573_pilon, whole genome shotgun sequence
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: 103875
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:879 original size:21 final size:20
Alignment explanation
Indices: 833--879 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
823 CTTACATTTT
833 AAAAAATAAACTCAAAATAA
1 AAAAAATAAACTCAAAATAA
* *
853 ATAAAATGAAACTTAAAA-AGA
1 AAAAAAT-AAACTCAAAATA-A
874 AAAAAA
1 AAAAAA
880 AGAACTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.74, C:0.06, G:0.04, T:0.15
Consensus pattern (20 bp):
AAAAAATAAACTCAAAATAA
Found at i:3277 original size:15 final size:16
Alignment explanation
Indices: 3246--3277 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3236 TGCAAAGGTG
3246 CTTGTCTCCACTTAGC
1 CTTGTCTCCACTTAGC
3262 CTTGTCTCCA-TTAGC
1 CTTGTCTCCACTTAGC
3277 C
1 C
3278 ATTACTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.12, C:0.38, G:0.12, T:0.38
Consensus pattern (16 bp):
CTTGTCTCCACTTAGC
Found at i:4485 original size:15 final size:16
Alignment explanation
Indices: 4454--4485 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4444 TGCAAAGGTG
4454 CTTGTCTCCACTTAGC
1 CTTGTCTCCACTTAGC
4470 CTTGTCTCCA-TTAGC
1 CTTGTCTCCACTTAGC
4485 C
1 C
4486 ATTACTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.12, C:0.38, G:0.12, T:0.38
Consensus pattern (16 bp):
CTTGTCTCCACTTAGC
Found at i:7273 original size:39 final size:39
Alignment explanation
Indices: 7184--7618 Score: 546
Period size: 39 Copynumber: 11.4 Consensus size: 39
7174 AGGGATCAAC
* * *
7184 ATCTCGCTTTAAATAGTTTCACTCGAAACAAAAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* * * *
7222 ATCTCACTTGAGATAGTTTTAATCGAAATAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
7261 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
** *
7300 ATCTCAATTGAGATAGTTTCACTCGGAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* * *
7339 TTCTCGCTTGAGATAGTTTTACTCGAAATA-AA-ATATTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGAT-TTT
* * *
7377 ATCTCGCTTGAGACAGTTTTACTCGAAATAGAAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* *
7415 ATCTTGCTCGA-ATAGTTTCACTCGAAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* * *
7453 ATCTCGATTGAGATAGTTTCCCTCGAAACAAAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* *
7492 ATCTCGCTCGAGATATTTTCACTCG-AA-AGAAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* * *
7528 ATCTAGCTTGAGATAGTTTCACTCGAAATATAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
7567 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
**
7605 ATCTTACTTGAGAT
1 ATCTCGCTTGAGAT
7619 TGTTGTTCTT
Statistics
Matches: 342, Mismatches: 46, Indels: 18
0.84 0.11 0.04
Matches are distributed among these distances:
36 25 0.07
37 29 0.08
38 106 0.31
39 181 0.53
40 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (39 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
Found at i:7466 original size:114 final size:114
Alignment explanation
Indices: 7196--7618 Score: 516
Period size: 114 Copynumber: 3.7 Consensus size: 114
7186 CTCGCTTTAA
* * * * *
7196 ATAGTTTCACTCGAAACAAAAGA-TTTATCTC-ACTTGAGATAGTTTTAATCGAAATAGAAGATT
1 ATAGTTTCACTCGAAACAGAAGATTTTATCTCGA-TTGAGATAGTTTCACTCGAAACAAAAGA-T
* *
7259 TTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCA-ATTGAG
64 TTATCTCGCTTGAGATAGTTTTACTCGAAA-AGAAGA-TTTATCT-AGCTTGAG
* * * * * *
7312 ATAGTTTCACTCGGAACAGAAGATTTTTTCTCGCTTGAGATAGTTTTACTCGAAATAAAATATTT
1 ATAGTTTCACTCGAAACAGAAGATTTTATCTCGATTGAGATAGTTTCACTCGAAACAAAAGATTT
* * *
7377 ATCTCGCTTGAGACAGTTTTACTCGAAATAGAAGATTTATCTTGCTCGA-
66 ATCTCGCTTGAGATAGTTTTACTCGAAA-AGAAGATTTATCTAGCTTGAG
*
7426 ATAGTTTCACTCGAAACAGAAGATTTTATCTCGATTGAGATAGTTTCCCTCGAAACAAAAGATTT
1 ATAGTTTCACTCGAAACAGAAGATTTTATCTCGATTGAGATAGTTTCACTCGAAACAAAAGA-TT
*
7491 TATCTCGCTCGAGATA-TTTTCACTCG-AAAGAAGATTTATCTAGCTTGAG
65 TATCTCGCTTGAGATAGTTTT-ACTCGAAAAGAAGATTTATCTAGCTTGAG
* * * *
7540 ATAGTTTCACTCGAAATATAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTT
1 ATAGTTTCACTCGAAACAGAAGATTTTATCTCGATTGAGATAGTTTCACTCGAAACAAAAGATTT
**
7605 ATCTTACTTGAGAT
66 ATCTCGCTTGAGAT
7619 TGTTGTTCTT
Statistics
Matches: 269, Mismatches: 32, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
113 32 0.12
114 118 0.44
115 31 0.12
116 56 0.21
117 32 0.12
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (114 bp):
ATAGTTTCACTCGAAACAGAAGATTTTATCTCGATTGAGATAGTTTCACTCGAAACAAAAGATTT
ATCTCGCTTGAGATAGTTTTACTCGAAAAGAAGATTTATCTAGCTTGAG
Found at i:7505 original size:153 final size:154
Alignment explanation
Indices: 7196--7618 Score: 613
Period size: 153 Copynumber: 2.8 Consensus size: 154
7186 CTCGCTTTAA
* * *
7196 ATAGTTTCACTCGAAACAAAAGATTTATCTCACTTGAGATAGTTTTAATCGAAATAGAAGATTTT
1 ATAGTTTTACTCGAAA-AAAAGATTTATCTCGCTTGAGATAGTTTTACTCGAAATAGAAGATTTT
*
7261 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCAATTGAGATAGTTTCACTCGG
65 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCAATTGAGATAGTTTCACTCGA
* * *
7326 AACAGAAGATTTTTTCTCGCTTGAG
130 AACAAAAGATTTTATCTCGCTCGAG
* *
7351 ATAGTTTTACTCGAAATAAAATATTTATCTCGCTTGAGACAGTTTTACTCGAAATAGAAGA-TTT
1 ATAGTTTTACTCGAAA-AAAAGATTTATCTCGCTTGAGATAGTTTTACTCGAAATAGAAGATTTT
* * * *
7415 ATCTTGCTCGA-ATAGTTTCACTCGAAACAGAAGATTTTATCTCGATTGAGATAGTTTCCCTCGA
65 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCAATTGAGATAGTTTCACTCGA
7479 AACAAAAGATTTTATCTCGCTCGAG
130 AACAAAAGATTTTATCTCGCTCGAG
* * * *
7504 ATA-TTTTCACTCG-AAAGAAGATTTATCTAGCTTGAGATAGTTTCACTCGAAATATAAGATTTT
1 ATAGTTTT-ACTCGAAAAAAAGATTTATCTCGCTTGAGATAGTTTTACTCGAAATAGAAGATTTT
* *
7567 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA-TTTATCTTACTTGAGAT
65 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCAATTGAGAT
7619 TGTTGTTCTT
Statistics
Matches: 240, Mismatches: 25, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
151 38 0.16
152 32 0.13
153 103 0.43
154 12 0.05
155 55 0.23
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (154 bp):
ATAGTTTTACTCGAAAAAAAGATTTATCTCGCTTGAGATAGTTTTACTCGAAATAGAAGATTTTA
TCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCAATTGAGATAGTTTCACTCGAA
ACAAAAGATTTTATCTCGCTCGAG
Found at i:9220 original size:110 final size:110
Alignment explanation
Indices: 9004--9292 Score: 366
Period size: 110 Copynumber: 2.6 Consensus size: 110
8994 ACGTTGTAAA
* ** * * **
9004 TCCCCCAAACTTTCCTGTGTTTTTACAAAATGGTCACTGGAAGTAACCGTTTTTATAATTTTCCC
1 TCCCCAAAACTTTCCCATATTTTTACAAAATGGTCACTGAAAGGGACCGTTTTTATAATTTTCCC
*
9069 TTTT-TGTTTATGCTTTATGATTTTTGGCATAATTTCATTTTAAG
66 TTTTATGTTTATGCTTTATAATTTTTGGCATAATTTCATTTTAAG
*
9113 TACCCTAAAACTTTCCCATA-TTTTACAAAATGGTCACTGAAAGGGACCGTTTTTATAATTTTCC
1 T-CCCCAAAACTTTCCCATATTTTTACAAAATGGTCACTGAAAGGGACCGTTTTTATAATTTTCC
* **
9177 CTTTTATGTTTATGCTTTATAATTTTTGGTATAATTTTGTTTTAAG
65 CTTTTATGTTTATGCTTTATAATTTTTGGCATAATTTCATTTTAAG
* * * ** ** * *
9223 TCCCCCAAACTTTCCCATATTTTTACAAAATAGTCATTGTGAGGGACTATTTTCATAATTTTCCA
1 TCCCCAAAACTTTCCCATATTTTTACAAAATGGTCACTGAAAGGGACCGTTTTTATAATTTTCCC
9288 TTTTA
66 TTTTA
9293 AATGTATGTT
Statistics
Matches: 155, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
109 63 0.41
110 92 0.59
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.45
Consensus pattern (110 bp):
TCCCCAAAACTTTCCCATATTTTTACAAAATGGTCACTGAAAGGGACCGTTTTTATAATTTTCCC
TTTTATGTTTATGCTTTATAATTTTTGGCATAATTTCATTTTAAG
Found at i:9539 original size:50 final size:48
Alignment explanation
Indices: 9409--9540 Score: 117
Period size: 50 Copynumber: 2.7 Consensus size: 48
9399 TCACTCTATT
* * *
9409 TATTTTTATTTT-TATT-TAGTCACTGTTAATTTCTTATTTAGCTACTA
1 TATTTTAATTTTGCATTCTAGTCACTGTT-ATTTCTTATTTAACTACTA
* * * *
9456 TTATTTTAATTTTGGATTTTGGTCACTATTTATTTCTTATTTAACTACTA
1 -TATTTTAATTTTGCATTCTAGTCACT-GTTATTTCTTATTTAACTACTA
*
9506 -ACTTTTATTTTCTTGCATTCTAGTCACTGTTATTT
1 TA-TTTTA-ATT-TTGCATTCTAGTCACTGTTATTT
9541 TATTTTATGC
Statistics
Matches: 68, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
48 12 0.18
49 8 0.12
50 33 0.49
51 15 0.22
ACGTcount: A:0.22, C:0.12, G:0.08, T:0.58
Consensus pattern (48 bp):
TATTTTAATTTTGCATTCTAGTCACTGTTATTTCTTATTTAACTACTA
Found at i:9628 original size:20 final size:20
Alignment explanation
Indices: 9572--9629 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 20
9562 TGTACTTGTA
*
9572 TGTTTTTTTAATTTTTTTAT
1 TGTTATTTTAATTTTTTTAT
* *
9592 T-TTGTTTTACTTTTTTTAT
1 TGTTATTTTAATTTTTTTAT
*
9611 TGTTATTTTATTTTTTTTA
1 TGTTATTTTAATTTTTTTA
9630 AAATTAGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (20 bp):
TGTTATTTTAATTTTTTTAT
Found at i:14491 original size:12 final size:12
Alignment explanation
Indices: 14474--14504 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
14464 CAAATATAAT
14474 AAATTTATTTCA
1 AAATTTATTTCA
14486 AAATTTATTTCA
1 AAATTTATTTCA
14498 AAATTTA
1 AAATTTA
14505 AAGTTGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATTTATTTCA
Found at i:14550 original size:20 final size:19
Alignment explanation
Indices: 14522--14570 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
14512 AAATGATTTG
* *
14522 ATTTTAAAAGCAAAAATTGA
1 ATTTGAAAAGC-AAAATTAA
*
14542 ATTTGAAAATCAAAATTAA
1 ATTTGAAAAGCAAAATTAA
14561 ATTTTGAAAA
1 A-TTTGAAAA
14571 ATGAATTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (19 bp):
ATTTGAAAAGCAAAATTAA
Found at i:15739 original size:124 final size:125
Alignment explanation
Indices: 15593--15822 Score: 333
Period size: 124 Copynumber: 1.8 Consensus size: 125
15583 ATTGTTATAT
* * * *
15593 AACAAAAAGGGGGAGATGTATGGTTTGAAAACTTCAATATT-TTAATGAAAAG-GGAGAGTTGAA
1 AACAAAAAGGGGGAGAAGTATGGTTTGAAAAATTAAAT-TTCTTAATGAAAAGTGG-GAGCT-AA
* * *
15656 A-ATTTTCATATTTTTCCAACAATTGGTATCCTTTTCATTAAATTAAGGGGGAATTTTCCAAA
63 ATATTTTCATATTTTTCCAACAAATGATATCATTTTCATTAAATTAAGGGGGAATTTTCCAAA
15718 AACAAAAA-GGGGAGAAGTATGGTTTGAAAAATTAAATTTCTTAATGAAAAGTGGGAGCTAAATA
1 AACAAAAAGGGGGAGAAGTATGGTTTGAAAAATTAAATTTCTTAATGAAAAGTGGGAGCTAAATA
*
15782 TTTTCATATTTTTCCAACAAATGATATTATTTTCATTAAAT
66 TTTTCATATTTTTCCAACAAATGATATCATTTTCATTAAAT
15823 ATTTTATTAA
Statistics
Matches: 94, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
123 5 0.05
124 79 0.84
125 10 0.11
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (125 bp):
AACAAAAAGGGGGAGAAGTATGGTTTGAAAAATTAAATTTCTTAATGAAAAGTGGGAGCTAAATA
TTTTCATATTTTTCCAACAAATGATATCATTTTCATTAAATTAAGGGGGAATTTTCCAAA
Found at i:17147 original size:18 final size:19
Alignment explanation
Indices: 17083--17151 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 19
17073 AAATAGTTGG
* *
17083 GTATCGATACTCCTATAGGGA
1 GTATCGATACT-CTACA-TGA
*
17104 GTATCGATACTCTACCT-A
1 GTATCGATACTCTACATGA
17122 CGGTATCGATACT-TACATGA
1 --GTATCGATACTCTACATGA
17142 GTATCGATAC
1 GTATCGATAC
17152 CCAATTTTGC
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
18 11 0.27
19 4 0.10
20 15 0.37
21 11 0.27
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (19 bp):
GTATCGATACTCTACATGA
Found at i:17210 original size:21 final size:20
Alignment explanation
Indices: 17185--17233 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
17175 AAAATACCCT
17185 AGTATCGACACT-GACCCTCTG
1 AGTATCGACACTAGA--CTCTG
* *
17206 AGTATCAATACTAGACTCTG
1 AGTATCGACACTAGACTCTG
17226 AGTATCGA
1 AGTATCGA
17234 TACTCCTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 12 0.50
21 10 0.42
22 2 0.08
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (20 bp):
AGTATCGACACTAGACTCTG
Found at i:19297 original size:17 final size:18
Alignment explanation
Indices: 19277--19325 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
19267 ATTACCAATT
19277 TTATTTAAATTAA-TTTA
1 TTATTTAAATTAACTTTA
* *
19294 TTATTCAAAATAACTTTTA
1 TTATTTAAATTAAC-TTTA
*
19313 TTGTTTAAATTAA
1 TTATTTAAATTAA
19326 AGTAAACTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 11 0.44
19 14 0.56
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (18 bp):
TTATTTAAATTAACTTTA
Found at i:21819 original size:16 final size:16
Alignment explanation
Indices: 21791--21833 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
21781 TTGCAGTAAG
*
21791 TTTCTTATATTTTAAC
1 TTTCTTATTTTTTAAC
* *
21807 TTTCTTATTTTTTTAT
1 TTTCTTATTTTTTAAC
21823 TTTC-TATTTTT
1 TTTCTTATTTTT
21834 CATTTAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTCTTATTTTTTAAC
Found at i:22510 original size:14 final size:14
Alignment explanation
Indices: 22491--22520 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22481 TTGATCTTTT
22491 AAGTTTTATTAAGA
1 AAGTTTTATTAAGA
*
22505 AAGTTTTATTGAGA
1 AAGTTTTATTAAGA
22519 AA
1 AA
22521 CTGAATGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (14 bp):
AAGTTTTATTAAGA
Found at i:23079 original size:16 final size:16
Alignment explanation
Indices: 23060--23091 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23050 AGTTGGTTTG
*
23060 CTTTTGGTTTGGATTA
1 CTTTTGGTTCGGATTA
23076 CTTTTGGTTCGGATTA
1 CTTTTGGTTCGGATTA
23092 ATTTCTGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.09, G:0.25, T:0.53
Consensus pattern (16 bp):
CTTTTGGTTCGGATTA
Found at i:30133 original size:3 final size:3
Alignment explanation
Indices: 30125--30168 Score: 52
Period size: 3 Copynumber: 13.7 Consensus size: 3
30115 TTTATTTATG
*
30125 ATA ATA ATA CTTA ATA ATA ATA ATTA ATA ATAA ATA ATA ATA AT
1 ATA ATA ATA -ATA ATA ATA ATA A-TA ATA AT-A ATA ATA ATA AT
30169 TAATTTTAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
3 28 0.78
4 8 0.22
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:30143 original size:13 final size:12
Alignment explanation
Indices: 30125--30168 Score: 56
Period size: 13 Copynumber: 3.7 Consensus size: 12
30115 TTTATTTATG
30125 ATAATAATACTTA
1 ATAATAATA-TTA
30138 ATAATAATAATTA
1 ATAATAAT-ATTA
30151 ATAATAA-A-TA
1 ATAATAATATTA
30161 ATAATAAT
1 ATAATAAT
30169 TAATTTTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.31
11 1 0.03
13 18 0.62
14 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (12 bp):
ATAATAATATTA
Found at i:30152 original size:10 final size:10
Alignment explanation
Indices: 30139--30172 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
30129 TAATACTTAA
30139 TAATAATAAT
1 TAATAATAAT
*
30149 TAATAATAAA
1 TAATAATAAT
30159 TAATAATAAT
1 TAATAATAAT
30169 TAAT
1 TAAT
30173 TTTAGACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAATAATAAT
Found at i:31847 original size:42 final size:42
Alignment explanation
Indices: 31800--31893 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 42
31790 CCGAAAGGGA
* * * *
31800 GTATCGATACCATAGTGTAGTAGTATCGATACTGAGAGAAA-G
1 GTATCGATACCATAATATAGAAGTATCGATAC-CAGAGAAAGG
* *
31842 GTATCGATACCATAATATAGAAGTATTGATACCATAGAAAGG
1 GTATCGATACCATAATATAGAAGTATCGATACCAGAGAAAGG
31884 GTATCGATAC
1 GTATCGATAC
31894 TATTGAGCCT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 6 0.13
42 39 0.87
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (42 bp):
GTATCGATACCATAATATAGAAGTATCGATACCAGAGAAAGG
Found at i:31892 original size:20 final size:20
Alignment explanation
Indices: 31822--31893 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
31812 TAGTGTAGTA
* *
31822 GTATCGATACTGAGAGAAA-G
1 GTATCGATAC-CATAGAAAGG
*
31842 GTATCGATACCATA-ATATAGAA
1 GTATCGATACCATAGA-A-AG-G
*
31864 GTATTGATACCATAGAAAGG
1 GTATCGATACCATAGAAAGG
31884 GTATCGATAC
1 GTATCGATAC
31894 TATTGAGCCT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
18 1 0.02
19 3 0.07
20 20 0.49
21 2 0.05
22 14 0.34
23 1 0.02
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.25
Consensus pattern (20 bp):
GTATCGATACCATAGAAAGG
Found at i:32427 original size:81 final size:81
Alignment explanation
Indices: 32291--33301 Score: 1538
Period size: 81 Copynumber: 12.5 Consensus size: 81
32281 TTTTAAAGTA
* ** * * * *
32291 AAAAGATTAATAGCCTAGCTGTTCATTTTTCATAAATGTGTCAATTATGCTAGTTAGATTAAAGG
1 AAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
32356 TTAAATACCTTTGAGT
66 TTAAATACCTTTGAGT
** * * * *
32372 AAAAGATTAATAGTATGGTTGTGCATTTGACAGAAAGGTGTCAATTAAGCCAGTTAGATGAAATG
1 AAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
*
32437 TAAAATACCTTTGAGT
66 TTAAATACCTTTGAGT
* * *
32453 AAAAGAATAATAGCCTAGTTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
1 AAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
32518 TTAAATACCTTTGAGT
66 TTAAATACCTTTGAGT
* * * *
32534 AAAA-ATTTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTATATTAAAG
1 AAAAGA-TTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
32598 GTTAAATACCTTTGAGT
65 GTTAAATACCTTTGAGT
* * * * *
32615 AAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCTAGTTATATGAAATG
1 AAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
32680 TTAAATACCTTTGAGT
66 TTAAATACCTTTGAGT
* * * *
32696 AAAAGATTAATAGCCCAGTTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGT
1 AAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
32761 TTAAATACCTTTGAGT
66 TTAAATACCTTTGAGT
* * * * *
32777 AAAAGATTAATAGACTAGCTATGCATTTGACAGAAATGTGTTAATTATGCCAGTTAGGTGAAAGG
1 AAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
*
32842 TAAAATACCTTTGAGT
66 TTAAATACCTTTGAGT
* * *
32858 AAAAGATTAATAGTCTATCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGG
1 AAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
*
32923 TCAAATACCTTTGAGT
66 TTAAATACCTTTGAGT
*
32939 AAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGG
1 AAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
* *
33004 TTGACTACCTTTGAGT
66 TTAAATACCTTTGAGT
*
33020 AAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGG
1 AAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
* *
33085 TTGACTACCTTTGAGT
66 TTAAATACCTTTGAGT
* * * *
33101 AAAAGATTAATAGCCTAGCTATGCATTTGACAGAAATGTGTCAATTATGTCAGTTAAATGAAAGG
1 AAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
33166 TTAAATACCTTTGAGT
66 TTAAATACCTTTGAGT
*
33182 AAAAGATTAATAGCCTAGCTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
1 AAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
33247 TTAAATACCTTTGAGT
66 TTAAATACCTTTGAGT
*
33263 AAAATATTAATAGCCTAGCTGTGCATTTGACAGAAAGGT
1 AAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGT
33302 TAAATACCTT
Statistics
Matches: 856, Mismatches: 72, Indels: 4
0.92 0.08 0.00
Matches are distributed among these distances:
80 1 0.00
81 854 1.00
82 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.32
Consensus pattern (81 bp):
AAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
TTAAATACCTTTGAGT
Found at i:33305 original size:54 final size:54
Alignment explanation
Indices: 33241--33343 Score: 179
Period size: 54 Copynumber: 1.9 Consensus size: 54
33231 CCAGTTAGAT
* *
33241 GAAAGGTTAAATACCTTTGAGTAAAATATTAATAGCCTAGCTGTGCATTTGACA
1 GAAAGGTTAAATACCTTTAAGTAAAAGATTAATAGCCTAGCTGTGCATTTGACA
*
33295 GAAAGGTTAAATACCTTTAAGTAAAAGATTAATAGCCTAGTTGTGCATT
1 GAAAGGTTAAATACCTTTAAGTAAAAGATTAATAGCCTAGCTGTGCATT
33344 AGGAAGAAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (54 bp):
GAAAGGTTAAATACCTTTAAGTAAAAGATTAATAGCCTAGCTGTGCATTTGACA
Found at i:33425 original size:135 final size:135
Alignment explanation
Indices: 33160--33407 Score: 345
Period size: 135 Copynumber: 1.8 Consensus size: 135
33150 TCAGTTAAAT
* * *
33160 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGCTGTGCATTTGATAGAAAGGTGTCA
1 GAAAGGTTAAATACCTTTAAGTAAAAGATTAATAGCCTAGCTGTGCATTGGATAGAAAGCTGTCA
* * * * * * *
33225 ATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAATATTAATAGCCTAGCTGTGCATT
66 ATCATGCAAGTTAGATGAAAGGCTAAATACCTTTGAGTAAAAGACTAATAGCCTAGATATGCATT
33290 TGACA
131 TGACA
*
33295 GAAAGGTTAAATACCTTTAAGTAAAAGATTAATAGCCTAGTTGTGCATTAGGA-AGAAAGCTGTC
1 GAAAGGTTAAATACCTTTAAGTAAAAGATTAATAGCCTAGCTGTGCATT-GGATAGAAAGCTGTC
** * *
33359 AATCATGCAAGTTAGATGAAAGGCTAAATGTCTTTGGGTAAGAGACTAA
65 AATCATGCAAGTTAGATGAAAGGCTAAATACCTTTGAGTAAAAGACTAA
33408 AGGCTTTATA
Statistics
Matches: 99, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
135 97 0.98
136 2 0.02
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (135 bp):
GAAAGGTTAAATACCTTTAAGTAAAAGATTAATAGCCTAGCTGTGCATTGGATAGAAAGCTGTCA
ATCATGCAAGTTAGATGAAAGGCTAAATACCTTTGAGTAAAAGACTAATAGCCTAGATATGCATT
TGACA
Found at i:33561 original size:45 final size:47
Alignment explanation
Indices: 33449--33561 Score: 122
Period size: 45 Copynumber: 2.4 Consensus size: 47
33439 GCATTAACGA
* *
33449 CATGAAAGGATGCCATATATGTAACATGTACAATAATGCATAATTGG
1 CATGAAAGGATGCCATAAATGTAACATGTACAACAATGCATAATTGG
* * * * * * *
33496 TAAGAAATGATACCATAAATGT-ACATTTA-AACAATGCATAGTTTG
1 CATGAAAGGATGCCATAAATGTAACATGTACAACAATGCATAATTGG
*
33541 CATGAAAGGATGCCACAAATG
1 CATGAAAGGATGCCATAAATG
33562 AAAATAAAAA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
45 29 0.56
46 6 0.12
47 17 0.33
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (47 bp):
CATGAAAGGATGCCATAAATGTAACATGTACAACAATGCATAATTGG
Found at i:39799 original size:81 final size:81
Alignment explanation
Indices: 39698--40750 Score: 1531
Period size: 81 Copynumber: 13.0 Consensus size: 81
39688 GTAAAAAAAA
* * * *
39698 TAATAGCTTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGATTAAATA
1 TAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATA
39763 CCTTTGAGTAAAAGAT
66 CCTTTGAGTAAAAGAT
* * * * * *
39779 TAATAACCTAG-AGTTGCATTTTACAGAAAGGTGTCAATTATGCTAGTTACATGAAATGTTAAAT
1 TAATAGCCTAGTTG-TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAAT
*
39843 ACCTTTGGGTAAAAGAT
65 ACCTTTGAGTAAAAGAT
39860 TAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATA
1 TAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATA
* *
39925 CTTTTAAGTAAAAGAT
66 CCTTTGAGTAAAAGAT
* * * * *
39941 TAATAGCCTAGCTGTGCATTTTGGCAGAAAGATGTCAATTATGGCAGTTAGATGAAATGTTAAAT
1 TAATAGCCTAGTTGTGCA-TTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAAT
*
40006 ACCTTTGAGTAAAATAT
65 ACCTTTGAGTAAAAGAT
*
40023 TAATAGCCTAGTTGTTCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATA
1 TAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATA
40088 CC-TTGAGTAAAAGAT
66 CCTTTGAGTAAAAGAT
* **
40103 TAATAGCCTAGCTT-TGCATTTGATC-GAAAGGTGTCAATTATGACAGTTAGATGAAAGAATAAA
1 TAATAGCCTAG-TTGTGCATTTGA-CAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAA
* *
40166 TACCATTAAGTAAAAGAT
64 TACCTTTGAGTAAAAGAT
* *
40184 TAATAGCCTAGTTGTGCATTTGAGAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAAATA
1 TAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATA
40249 CCTTTGAGTAAAAGAT
66 CCTTTGAGTAAAAGAT
40265 TAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATA
1 TAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATA
40330 CCTTTGAGTAAAAGAT
66 CCTTTGAGTAAAAGAT
* * *
40346 TAATAGCCTAGTTGTGCATTTGATAGAAAATGTGTCAATTATGCCAGTTAGATGAAAAGTTAAAT
1 TAATAGCCTAGTTGTGCATTTGACAG-AAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAAT
40411 ACCTTTGAGTAAAAGAT
65 ACCTTTGAGTAAAAGAT
* ** *
40428 TAATAGCCTAGTTGTGCATTTGAAAGAATTGTGTCAATTATGTCAGTTAGATGAAA-GTTAAATA
1 TAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATA
40492 CCTTTGAGTAAAAGAT
66 CCTTTGAGTAAAAGAT
* *
40508 TAATAGCCTAGTTGTGCATTTGACAGGAGAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAAAT
1 TAATAGCCTAGTTGTGCATTTGACA-GAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAAT
*
40573 TCCTTTGAGTAAAAGAT
65 ACCTTTGAGTAAAAGAT
* * * * **
40590 TAATAGCCAAGCTGTGCATTTGATAAAAAAAATGTCAATTATGCCAGTTAGATGAAAGGTTAAAT
1 TAATAGCCTAGTTGTGCATTTGA-CAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAAT
* *
40655 ATCTTTGAGTAAAAGAA
65 ACCTTTGAGTAAAAGAT
* * * * * * *
40672 TAATAGTCTAGCTGTGCATTTGACAGAAAGGTGTTAATCATGCAAGTTAGAGGAAAGGCTAAATA
1 TAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATA
*
40737 CCTTTGGGTAAAAG
66 CCTTTGAGTAAAAG
40751 GCTAAAGGAT
Statistics
Matches: 878, Mismatches: 82, Indels: 24
0.89 0.08 0.02
Matches are distributed among these distances:
80 121 0.14
81 492 0.56
82 264 0.30
83 1 0.00
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (81 bp):
TAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATA
CCTTTGAGTAAAAGAT
Found at i:40482 original size:244 final size:243
Alignment explanation
Indices: 39698--40750 Score: 1542
Period size: 244 Copynumber: 4.3 Consensus size: 243
39688 GTAAAAAAAA
* * * *
39698 TAATAGCTTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGATTAAATA
1 TAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAAATA
* * * *
39763 CCTTTGAGTAAAAGATTAATAACCTAG-AGTTGCATTTTACAGAAAGGTGTCAATTATGCTAGTT
66 CCTTTGAGTAAAAGATTAATAGCCTAGTTG-TGCATTTGACAGAAAGGTGTCAATTATGCCAGTT
* * * *
39827 ACATGAAATGTTAAATACCTTTGGGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGT
130 AGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGATAGAAAGGT
* *
39892 GTCAATTATGCCAGTTAGATGAAAGGTTAAATACTTTTAAGTAAAAGAT
195 GTCAATTATGCCAGTTAGATGAAAAGTTAAATACCTTTAAGTAAAAGAT
* * * *
39941 TAATAGCCTAGCTGTGCATTTTGGCAGAAAGATGTCAATTATGGCAGTTAGATGAAATGTTAAAT
1 TAATAGCCTAGCTGTGCA-TTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAAAT
* *
40006 ACCTTTGAGTAAAATATTAATAGCCTAGTTGTTCATTTGACAGAAAGGTGTCAATTATGCCAGTT
65 ACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTT
*
40071 AGATGAAAGGTTAAATACC-TTGAGTAAAAGATTAATAGCCTAGCTT-TGCATTTGATCGAAAGG
130 AGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAG-TTGTGCATTTGATAGAAAGG
* * *
40134 TGTCAATTATGACAGTTAGATG-AAAGAATAAATACCATTAAGTAAAAGAT
194 TGTCAATTATGCCAGTTAGATGAAAAG-TTAAATACCTTTAAGTAAAAGAT
* *
40184 TAATAGCCTAGTTGTGCATTTGAGAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAAATA
1 TAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAAATA
40249 CCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTA
66 CCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTA
*
40314 GATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGATAGAAAATGT
131 GATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGATAG-AAAGGT
*
40379 GTCAATTATGCCAGTTAGATGAAAAGTTAAATACCTTTGAGTAAAAGAT
195 GTCAATTATGCCAGTTAGATGAAAAGTTAAATACCTTTAAGTAAAAGAT
* * **
40428 TAATAGCCTAGTTGTGCATTTGAAAGAATTGTGTCAATTATGTCAGTTAGATGAAA-GTTAAATA
1 TAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAAATA
* *
40492 CCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGGAGAGGTGTCAATTATGTCAGTT
66 CCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACA-GAAAGGTGTCAATTATGCCAGTT
* * * * **
40557 AGATGAAAGGTTAAATTCCTTTGAGTAAAAGATTAATAGCCAAGCTGTGCATTTGATAAAAAAAA
130 AGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGAT-AGAAAGG
* * * *
40622 TGTCAATTATGCCAGTTAGATGAAAGGTTAAATATCTTTGAGTAAAAGAA
194 TGTCAATTATGCCAGTTAGATGAAAAGTTAAATACCTTTAAGTAAAAGAT
* * * * *
40672 TAATAGTCTAGCTGTGCATTTGACAGAAAGGTGTTAATCATG-CAAGTTAGAGGAAAGGCTAAAT
1 TAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGTC-AGTTAGATGAAAGGTTAAAT
*
40736 ACCTTTGGGTAAAAG
65 ACCTTTGAGTAAAAG
40751 GCTAAAGGAT
Statistics
Matches: 737, Mismatches: 61, Indels: 22
0.90 0.07 0.03
Matches are distributed among these distances:
242 128 0.17
243 198 0.27
244 385 0.52
245 26 0.04
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (243 bp):
TAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAAATA
CCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTA
GATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGATAGAAAGGTG
TCAATTATGCCAGTTAGATGAAAAGTTAAATACCTTTAAGTAAAAGAT
Found at i:40860 original size:47 final size:45
Alignment explanation
Indices: 40795--40913 Score: 125
Period size: 45 Copynumber: 2.6 Consensus size: 45
40785 GTGCATTTAC
*
40795 GGCATGAAAAGATGCCATATATAT-AAAATGTACA-ACAATGCATAATT
1 GGCATGAAAAGATACCATA-A-ATGAAAA--TACAGACAATGCATAATT
* *
40842 GGTATGAAATGATACCATAAATGAAAATACAGACAATGCATAATT
1 GGCATGAAAAGATACCATAAATGAAAATACAGACAATGCATAATT
* * * *
40887 GGCATGAAAGGATGCCACAATTGAAAA
1 GGCATGAAAAGATACCATAAATGAAAA
40914 AAATGGTGTA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
44 4 0.06
45 37 0.60
46 5 0.08
47 16 0.26
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.23
Consensus pattern (45 bp):
GGCATGAAAAGATACCATAAATGAAAATACAGACAATGCATAATT
Found at i:42509 original size:14 final size:14
Alignment explanation
Indices: 42492--42522 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
42482 ATACAAAAAT
*
42492 AAAAATAGAAGATA
1 AAAAATAAAAGATA
42506 AAAAATAAAAGATA
1 AAAAATAAAAGATA
42520 AAA
1 AAA
42523 TGAAATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (14 bp):
AAAAATAAAAGATA
Found at i:42544 original size:14 final size:15
Alignment explanation
Indices: 42525--42590 Score: 57
Period size: 15 Copynumber: 4.4 Consensus size: 15
42515 AGATAAAATG
42525 AAATATA-AAATAAT
1 AAATATATAAATAAT
42539 AAATATATAACAT-AT
1 AAATATATAA-ATAAT
* *
42554 AATTATAGT-AATAAA
1 AAATATA-TAAATAAT
42569 AATATATATAAATAAT
1 AA-ATATATAAATAAT
*
42585 ATATAT
1 AAATAT
42591 GAAAAAGAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
14 9 0.22
15 19 0.46
16 13 0.32
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (15 bp):
AAATATATAAATAAT
Found at i:42587 original size:13 final size:12
Alignment explanation
Indices: 42564--42648 Score: 57
Period size: 12 Copynumber: 6.9 Consensus size: 12
42554 AATTATAGTA
42564 ATAAAAATATAT
1 ATAAAAATATAT
42576 ATAAATAATATAT
1 ATAAA-AATATAT
*
42589 ATGAAAAAGA-AT
1 AT-AAAAATATAT
*
42601 -TAAAAGTATAT
1 ATAAAAATATAT
* * *
42612 ATATATATATAA
1 ATAAAAATATAT
* *
42624 ATAAAGATAGAAT
1 ATAAAAATA-TAT
42637 ATAGAAAATATA
1 ATA-AAAATATA
42649 AAATATAAAA
Statistics
Matches: 54, Mismatches: 13, Indels: 11
0.69 0.17 0.14
Matches are distributed among these distances:
10 5 0.09
11 3 0.06
12 21 0.39
13 17 0.31
14 8 0.15
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (12 bp):
ATAAAAATATAT
Found at i:42605 original size:36 final size:37
Alignment explanation
Indices: 42537--42655 Score: 97
Period size: 36 Copynumber: 3.2 Consensus size: 37
42527 ATATAAAATA
* *
42537 ATAAATATATAACATATAATTATAGTA-ATAAAAATATAT
1 ATAAATATATAA-ATA-AA-GATAGAATATAAAAATATAT
* *
42576 ATAAATAATATATATGAAA-A-AGAAT-TAAAAGTATAT
1 ATAAAT-ATATAAAT-AAAGATAGAATATAAAAATATAT
* *
42612 ATATATATATAAATAAAGATAGAATATAGAAA-ATAT
1 ATAAATATATAAATAAAGATAGAATATAAAAATATAT
42648 A-AAATATA
1 ATAAATATA
42656 AAAAAAATAG
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
34 3 0.05
35 14 0.21
36 28 0.42
37 5 0.08
39 10 0.15
40 6 0.09
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (37 bp):
ATAAATATATAAATAAAGATAGAATATAAAAATATAT
Found at i:42660 original size:16 final size:16
Alignment explanation
Indices: 42618--42660 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
42608 ATATATATAT
*
42618 ATATAAATAAAGATAGA
1 ATATAAA-AAAGATAAA
* *
42635 ATATAGAAAATATAAA
1 ATATAAAAAAGATAAA
42651 ATATAAAAAA
1 ATATAAAAAA
42661 AATAGCCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (16 bp):
ATATAAAAAAGATAAA
Found at i:42690 original size:2 final size:2
Alignment explanation
Indices: 42683--42713 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
42673 AAGATAATTA
42683 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
42714 ATAAGAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44262 original size:110 final size:110
Alignment explanation
Indices: 44128--44334 Score: 290
Period size: 110 Copynumber: 1.9 Consensus size: 110
44118 GCTCTAGAAA
* * * * *
44128 TTGTTTGTTGACAGTCAGCTGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTATCTCGAGTTCAATA
1 TTGTTTATTGACAATCAGCTGCCCCTTCACTGTGAAGTTGAACTTGTGTTATCTCGAGTCCAATA
* *
44193 TCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAATG
66 TCCCTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGAAATG
* * *
44238 TTGTTTATTGACAATCAG-TCGCCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAAT
1 TTGTTTATTGACAATCAGCT-GCCCCTTCACTGTGAAGTTGAACTTGTGTTATCTCGAGTCCAAT
* *
44302 ATCCCTCGGTGTGAAGTTAAAATTGGCTCTGAA
65 ATCCCTCGCTGTGAAGTTAAAATTGACTCTGAA
44335 ACTGGGAAGC
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
109 1 0.01
110 83 0.99
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (110 bp):
TTGTTTATTGACAATCAGCTGCCCCTTCACTGTGAAGTTGAACTTGTGTTATCTCGAGTCCAATA
TCCCTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGAAATG
Found at i:45448 original size:10 final size:11
Alignment explanation
Indices: 45428--45452 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
45418 ACGTTTTTCA
45428 TTTTTGTTTTT
1 TTTTTGTTTTT
45439 TTTTTGTTTTT
1 TTTTTGTTTTT
45450 TTT
1 TTT
45453 ACTTAGGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTGTTTTT
Found at i:55796 original size:29 final size:29
Alignment explanation
Indices: 55763--55825 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
55753 AAAAATGTAG
*
55763 TAAAAATGAATAAAATAAAGAAGGTG-AAA
1 TAAAAATAAATAAAATAAAGAAGG-GAAAA
** *
55792 TAAAAATAAATGCAATAAAGTAGGGAAAA
1 TAAAAATAAATAAAATAAAGAAGGGAAAA
55821 TAAAA
1 TAAAA
55826 CAGATAAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 1 0.03
29 28 0.97
ACGTcount: A:0.65, C:0.02, G:0.16, T:0.17
Consensus pattern (29 bp):
TAAAAATAAATAAAATAAAGAAGGGAAAA
Found at i:55960 original size:20 final size:19
Alignment explanation
Indices: 55917--56001 Score: 59
Period size: 20 Copynumber: 4.4 Consensus size: 19
55907 TATAATACAT
* *
55917 AAAATAAAGA-AGATAATA
1 AAAATAAAGATAAAAAATA
*
55935 ACAATAACA-ATACAAAAATA
1 AAAATAA-AGATA-AAAAATA
55955 AAAATAGAAGATAAAAAATA
1 AAAATA-AAGATAAAAAATA
* *
55975 AAAGATAAA-ATGAAATATA
1 AAA-ATAAAGATAAAAAATA
55994 TAAAATAA
1 -AAAATAA
56002 TAAATATATA
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
18 7 0.13
19 14 0.26
20 26 0.48
21 7 0.13
ACGTcount: A:0.72, C:0.04, G:0.07, T:0.18
Consensus pattern (19 bp):
AAAATAAAGATAAAAAATA
Found at i:55971 original size:14 final size:14
Alignment explanation
Indices: 55954--55984 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
55944 ATACAAAAAT
*
55954 AAAAATAGAAGATA
1 AAAAATAAAAGATA
55968 AAAAATAAAAGATA
1 AAAAATAAAAGATA
55982 AAA
1 AAA
55985 TGAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (14 bp):
AAAAATAAAAGATA
Found at i:56008 original size:14 final size:15
Alignment explanation
Indices: 55987--56050 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 15
55977 AGATAAAATG
55987 AAATATATAAAATAAT
1 AAATATAT-AAATAAT
56003 AAATATATAACAT-AT
1 AAATATATAA-ATAAT
* *
56018 AATTATAGT-AATAAA
1 AAATATA-TAAATAAT
56033 AATATATATAAATAAT
1 AA-ATATATAAATAAT
56049 AA
1 AA
56051 TGATATATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
14 2 0.05
15 15 0.38
16 22 0.56
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (15 bp):
AAATATATAAATAAT
Found at i:56048 original size:19 final size:19
Alignment explanation
Indices: 56026--56082 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
56016 ATAATTATAG
56026 TAATAAAAATATATATAAA
1 TAATAAAAATATATATAAA
** *
56045 TAATAATGATATATGAAAAA
1 TAATAAAAATATAT-ATAAA
* *
56065 GAATTAAAAGTATATATA
1 TAA-TAAAAATATATATA
56083 TATATACATA
Statistics
Matches: 28, Mismatches: 8, Indels: 3
0.72 0.21 0.08
Matches are distributed among these distances:
19 12 0.43
20 8 0.29
21 8 0.29
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (19 bp):
TAATAAAAATATATATAAA
Found at i:56164 original size:2 final size:2
Alignment explanation
Indices: 56157--56185 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
56147 AAGATAATTA
56157 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
56186 AGAATAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58152 original size:23 final size:25
Alignment explanation
Indices: 58121--58176 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
58111 TACATCTTTG
*
58121 ATTTGTCTAA-ATCAA-GTATTTTT
1 ATTTATCTAATATCAATGTATTTTT
*
58144 ATTTATCTAATTTCAATGTATTTTT
1 ATTTATCTAATATCAATGTATTTTT
*
58169 ATCTATCT
1 ATTTATCT
58177 TGCAATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 9 0.32
24 4 0.14
25 15 0.54
ACGTcount: A:0.29, C:0.11, G:0.05, T:0.55
Consensus pattern (25 bp):
ATTTATCTAATATCAATGTATTTTT
Found at i:59147 original size:20 final size:20
Alignment explanation
Indices: 59118--59160 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
59108 GTTACTAGCA
*
59118 TATCCAATATACTTGTCATT
1 TATCCAATATACTTGCCATT
*
59138 TATCCCATATACTTGCCATT
1 TATCCAATATACTTGCCATT
59158 TAT
1 TAT
59161 TACCATAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (20 bp):
TATCCAATATACTTGCCATT
Found at i:59266 original size:44 final size:45
Alignment explanation
Indices: 59144--59273 Score: 201
Period size: 45 Copynumber: 2.9 Consensus size: 45
59134 CATTTATCCC
*
59144 ATATACTTGCCATTTATTACCATAAGATT-GTAAGCTTATTTCACCA
1 ATATACTTACCATTTATT-CCATAAG-TTCGTAAGCTTATTTCACCA
* *
59190 ATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCA
1 ATATACTTACCATTTATTCCATAAGTTCGTAAGCTTATTTCACCA
59235 ATATACTTACCA-TTATTCCATAAGTTCGTAAGCTTATTT
1 ATATACTTACCATTTATTCCATAAGTTCGTAAGCTTATTT
59274 GCCAGTTTTT
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
44 27 0.34
45 35 0.44
46 17 0.22
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.41
Consensus pattern (45 bp):
ATATACTTACCATTTATTCCATAAGTTCGTAAGCTTATTTCACCA
Found at i:59824 original size:3 final size:3
Alignment explanation
Indices: 59816--59935 Score: 213
Period size: 3 Copynumber: 40.0 Consensus size: 3
59806 CCATATTGAT
* *
59816 TTA TTA TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
59864 TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
59912 TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
59936 AATATATTAA
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 111 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:60463 original size:15 final size:14
Alignment explanation
Indices: 60443--60485 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
60433 ACAATACAGC
60443 AAAGAAACAGAAAAG
1 AAAGAAA-AGAAAAG
60458 AAAGAAAAGAAAAAAG
1 AAAGAAAAG--AAAAG
*
60474 AAAGAAGAGAAA
1 AAAGAAAAGAAA
60486 CTTACTGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 5 0.20
15 7 0.28
16 13 0.52
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAGAAAAGAAAAG
Found at i:60474 original size:16 final size:16
Alignment explanation
Indices: 60453--60485 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
60443 AAAGAAACAG
60453 AAAAGAAAGAAAAGAA
1 AAAAGAAAGAAAAGAA
*
60469 AAAAGAAAGAAGAGAA
1 AAAAGAAAGAAAAGAA
60485 A
1 A
60486 CTTACTGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAAGAAAGAAAAGAA
Found at i:61366 original size:17 final size:18
Alignment explanation
Indices: 61332--61382 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
61322 TTATGTAGTC
*
61332 ATAAATATATATAAT-AA
1 ATAAATATTTATAATAAA
**
61349 ATAAATATTTATTTTAAA
1 ATAAATATTTATAATAAA
61367 ATAAATTATTT-TAATA
1 ATAAA-TATTTATAATA
61383 TTTATTTTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 12 0.44
18 10 0.37
19 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAAATATTTATAATAAA
Found at i:72791 original size:11 final size:11
Alignment explanation
Indices: 72766--72852 Score: 106
Period size: 11 Copynumber: 7.7 Consensus size: 11
72756 ATTATGCTTG
72766 AAGAAGAAAAAA
1 AAGAA-AAAAAA
*
72778 AAGAAAAAAGA
1 AAGAAAAAAAA
72789 AAGAAAAAAAA
1 AAGAAAAAAAA
72800 AAGAAAAAGAAA
1 AAGAAAAA-AAA
72812 AA-AAAAGAAAA
1 AAGAAAA-AAAA
72823 AAG-AAAAAAA
1 AAGAAAAAAAA
*
72833 GAGAAAAAAAA
1 AAGAAAAAAAA
72844 GAAGAAAAA
1 -AAGAAAAA
72853 GGGGGGGTCA
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
10 6 0.09
11 42 0.64
12 18 0.27
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:72805 original size:31 final size:32
Alignment explanation
Indices: 72769--72851 Score: 116
Period size: 31 Copynumber: 2.6 Consensus size: 32
72759 ATGCTTGAAG
*
72769 AAGAAAAAAAAGAAAAAAGAAAGAA-AAAAAA
1 AAGAAAAAAAAGAAAAAAGAAAAAAGAAAAAA
72800 AAGAAAAAGAAA-AAAAAAGAAAAAAGAAAAAA
1 AAGAAAAA-AAAGAAAAAAGAAAAAAGAAAAAA
72832 AGAGAAAAAAAAGAAGAAAA
1 A-AGAAAAAAAAGAA-AAAA
72852 AGGGGGGGTC
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
31 20 0.43
32 13 0.28
33 9 0.20
34 4 0.09
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (32 bp):
AAGAAAAAAAAGAAAAAAGAAAAAAGAAAAAA
Found at i:72852 original size:1 final size:1
Alignment explanation
Indices: 72772--72843 Score: 63
Period size: 1 Copynumber: 72.0 Consensus size: 1
72762 CTTGAAGAAG
* * * * * * * * *
72772 AAAAAAAAGAAAAAAGAAAGAAAAAAAAAAGAAAAAGAAAAAAAAAGAAAAAAGAAAAAAAGAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
72837 AAAAAAA
1 AAAAAAA
72844 GAAGAAAAAG
Statistics
Matches: 53, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:74142 original size:83 final size:83
Alignment explanation
Indices: 74004--74387 Score: 646
Period size: 83 Copynumber: 4.6 Consensus size: 83
73994 AAATGCCAGG
74004 TGCTCATAGCATCTTCTGGAAGT-TTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATT
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATT
*
74068 GAATTTGGAAGA-GTAATA
66 GAATTTGGAAAATG-AATA
74086 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATT
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATT
*
74151 GAATCTGGAAAATGAATA
66 GAATTTGGAAAATGAATA
* * * * *
74169 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACTAGTTATT
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATT
*
74234 GAATTTGGAAAGATGAATG
66 GAATTTGGAAA-ATGAATA
*
74253 TGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCAT
1 TGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCAT
74318 TGAATTTGGAAAATGAATA
65 TGAATTTGGAAAATGAATA
74337 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
74388 TATGAACCCC
Statistics
Matches: 281, Mismatches: 17, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
82 23 0.08
83 171 0.61
84 21 0.07
85 66 0.23
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (83 bp):
TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATT
GAATTTGGAAAATGAATA
Found at i:74298 original size:168 final size:166
Alignment explanation
Indices: 74004--74389 Score: 659
Period size: 168 Copynumber: 2.3 Consensus size: 166
73994 AAATGCCAGG
* *
74004 TGCTCATAGCATCTTCTGGAAGT-TTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATT
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
*
74068 GAATTTGGAAGAGTAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGT
66 GAATTTGGAAGAGTAATATGCCCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGT
74133 TTGGCAGAACCAATCATTGAATCTGGAAAATGAATA
131 TTGGCAGAACCAATCATTGAATCTGGAAAATGAATA
* * *
74169 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACTAGTTATT
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
*
74234 GAATTTGGAA-AGATGAATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
66 GAATTTGGAAGAG-T-AATATGCCC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
*
74298 GGTTTGGCAGAACCAATCATTGAATTTGGAAAATGAATA
128 GGTTTGGCAGAACCAATCATTGAATCTGGAAAATGAATA
74337 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
74390 TGAACCCCAA
Statistics
Matches: 209, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
165 25 0.12
166 47 0.22
167 7 0.03
168 130 0.62
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (166 bp):
TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
GAATTTGGAAGAGTAATATGCCCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGT
TTGGCAGAACCAATCATTGAATCTGGAAAATGAATA
Found at i:75425 original size:113 final size:112
Alignment explanation
Indices: 75221--76070 Score: 993
Period size: 113 Copynumber: 7.5 Consensus size: 112
75211 GCAAAGATTC
* * * * *
75221 AAATCCATCATTCGATGGATCAACATTGCCAGGTCGAGTTCATAATAAGAAGAACTCATCTGAAG
1 AAATTCATCATT-GATGGATCAGCTTTTCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAG
* * * *
75286 AAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTTAA-CTTTTCGCTT
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-GCTT
* * * * *
75334 GAATTCATCATTCGATGGATCAACATTGCCAGGTCGAGTTCATAATGAGAATAACTCATCTGAAG
1 AAATTCATCATT-GATGGATCAGCTTTTCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAG
* * * *
75399 AAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAATCTTTTGCTC
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTT
* *** *
75447 AAATCCATCATTTGATGGATCAGCTTTTCCAGGGAAAGTTCATAATAAGAAGAACTCATCTGAAG
1 AAATTCATCA-TTGATGGATCAGCTTTTCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
75512 AAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAATCTTTTGCTC
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTT
**
75560 AAATTCATCATTTGATGGATCAGCTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAA
1 AAATTCATCA-TTGATGGATCAGCTTTTCCAG-GTCGAGTTCATAATGAGAAGAACTCATCTGAA
* * * *
75624 GAAGGAAGAATAAATTCATAATGAGAAGAATTTTTTCAACTTTTTGCTT
64 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTT
* * *
75673 AAATCCATCACTTGATAGATCCGCTTTTCCAGAG--GAAGTTCATAATGAGAAGAACTCATCTGA
1 AAATTCATCA-TTGATGGATCAGCTTTTCCAG-GTCG-AGTTCATAATGAGAAGAACTCATCTGA
* *
75736 AGAAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
63 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTT
* * *
75786 AAA-TCTATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAA
1 AAATTC-ATCA-TTGATGGATCAGCTTTTCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAA
* *
75850 GAAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
64 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTT
* * * *
75899 AAA-TCTATCACTTGATAGATTAGCTTTTCCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAA
1 AAATTC-ATCA-TTGATGGATCAGCTTTTCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAA
* * *
75963 GAAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAGA-TTTTTGCTC
64 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA-ACCTTTTGCTT
* * *
76012 AAATCCATCACTTGATAGG-TCA-ATTTTGCCAGAG--AAGTTCATAATGAGAAGAACTCATC
1 AAATTCATCA-TTGAT-GGATCAGCTTTT-CCAG-GTCGAGTTCATAATGAGAAGAACTCATC
76071 AAGAGCTTAT
Statistics
Matches: 668, Mismatches: 57, Indels: 25
0.89 0.08 0.03
Matches are distributed among these distances:
112 28 0.04
113 628 0.94
114 12 0.02
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (112 bp):
AAATTCATCATTGATGGATCAGCTTTTCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTT
Found at i:75618 original size:226 final size:224
Alignment explanation
Indices: 75219--76070 Score: 1110
Period size: 226 Copynumber: 3.8 Consensus size: 224
75209 TAGCAAAGAT
* * * * * *
75219 TCAAATCCATCA-TTCGATGGATCAACATTGCCAGGTCGAGTTCATAATAAGAAGAACTCATCTG
1 TCAAATCCATCACTT-GATAGATCAGCTTTTCCAGGGCAAGTTCATAATAAGAAGAACTCATCTG
* * * * **
75283 AAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTTAA-CTTTTCGCTTGAATTCATCA-TT
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAATCTTTT-GCTCAAATTCATCACTT
* * * * *
75346 CGATGGATCAACATTGCCAG-GTCGAGTTCATAATGAGAATAACTCATCTGAAGAAAGAAGAAGA
129 -GATGGATC-ACTTTTCCAGAG-CAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
75410 AATTCATAATGAGAAGAATTTGTTCAATCTTTTGC
191 AATTCATAATGAGAAGAATTTGTTCAA-CTTTTGC
* * *
75445 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGGGAAAGTTCATAATAAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATAGATCAGCTTTTCCAGGGCAAGTTCATAATAAGAAGAACTCATCTGA
* *
75510 AGAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAATCTTTTGCTCAAATTCATCATTTGA
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAATCTTTTGCTCAAATTCATCACTTGA
* *
75575 TGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAATT
131 TGGATCA-CTTTTCCAGAGCAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATT
*
75640 CATAATGAGAAGAATTTTTTCAACTTTTTGC
195 CATAATGAGAAGAATTTGTTCAAC-TTTTGC
* * *
75671 TTAAATCCATCACTTGATAGATCCGCTTTTCCAGAGG-AAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCACTTGATAGATCAGCTTTTCCAG-GGCAAGTTCATAATAAGAAGAACTCATCTG
* *
75735 AAGAAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAA-TCTATCACTT
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAATCTTTTGCTCAAATTC-ATCACTT
* ** * * *
75799 GATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAG
129 GATGGATCA-CTTTTCCAGAGCAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA
75864 TTCATAATGAGAAGAATTTGTTCAACCTTTTGC
193 TTCATAATGAGAAGAATTTGTTCAA-CTTTTGC
* * ** *
75897 TCAAATCTATCACTTGATAGATTAGCTTTTCCAGTTCGAGTTCATAATAAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATAGATCAGCTTTTCCAGGGCAAGTTCATAATAAGAAGAACTCATCTGA
* *
75962 AGAAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAGAT-TTTTGCTCAAATCCATCACTTG
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA-ATCTTTTGCTCAAATTCATCACTTG
*
76026 ATAGG-TCAATTTTGCCAGAG-AAGTTCATAATGAGAAGAACTCATC
130 AT-GGATCACTTTT-CCAGAGCAAGTTCATAATGAGAAGAACTCATC
76071 AAGAGCTTAT
Statistics
Matches: 557, Mismatches: 55, Indels: 29
0.87 0.09 0.05
Matches are distributed among these distances:
225 32 0.06
226 508 0.91
227 17 0.03
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (224 bp):
TCAAATCCATCACTTGATAGATCAGCTTTTCCAGGGCAAGTTCATAATAAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAATCTTTTGCTCAAATTCATCACTTGA
TGGATCACTTTTCCAGAGCAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTC
ATAATGAGAAGAATTTGTTCAACTTTTGC
Found at i:75846 original size:339 final size:339
Alignment explanation
Indices: 75257--76070 Score: 1122
Period size: 339 Copynumber: 2.4 Consensus size: 339
75247 TGCCAGGTCG
* * *
75257 AGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTT
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA-TTTTTT
* * * * * * *
75322 -AACTTTTCGCTTGAATTCATCA-TTCGATGGATCAACATTGCCAG-GTCG-AGTTCATAATGAG
65 CAACTTTTTGCTTAAATCCATCACTT-GATAGATCCACTTTTCCAGAG--GAAGTTCATAATGAG
* *
75383 AATAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAATCTTTTGCTCA
127 AAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
*
75448 AATCCATCATTTGATGGATCAGCTTTTCCAGGGAAAGTTCATAATAAGAAGAACTCATCTGAAGA
192 AATCCATCACTTGATGGATCAGCTTTTCCAGGGAAAGTTCATAATAAGAAGAACTCATCTGAAGA
* * * *
75513 AGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAATCTTTTGCTCAAAT-TCATCATTTGATG
257 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT-ATCACTTGATA
75577 GATCAGCTTTTCCAGAGAA
321 GATCAGCTTTTCCAGAGAA
* * *
75596 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAATTCATAATGAGAAGAATTTTTTC
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTTTTC
*
75661 AACTTTTTGCTTAAATCCATCACTTGATAGATCCGCTTTTCCAGAGGAAGTTCATAATGAGAAGA
66 AACTTTTTGCTTAAATCCATCACTTGATAGATCCACTTTTCCAGAGGAAGTTCATAATGAGAAGA
* * *
75726 ACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATC
131 ACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATC
* * * **** *
75791 TATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
196 CATCACTTGATGGATCAGCTTTTCCAGGGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGA
* *
75856 TGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCTATCACTTGATAGATTA
261 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCTATCACTTGATAGATCA
****
75921 GCTTTTCCAGTTCG
326 GCTTTTCCAGAGAA
* *
75935 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTTTTC
* * *
76000 AGA-TTTTTGCTCAAATCCATCACTTGATAGGT-CAATTTTGCCAGA-GAAGTTCATAATGAGAA
66 A-ACTTTTTGCTTAAATCCATCACTTGATAGATCCACTTTT-CCAGAGGAAGTTCATAATGAGAA
76062 GAACTCATC
129 GAACTCATC
76071 AAGAGCTTAT
Statistics
Matches: 421, Mismatches: 47, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
338 37 0.09
339 379 0.90
340 5 0.01
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.30
Consensus pattern (339 bp):
AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTTTTC
AACTTTTTGCTTAAATCCATCACTTGATAGATCCACTTTTCCAGAGGAAGTTCATAATGAGAAGA
ACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATC
CATCACTTGATGGATCAGCTTTTCCAGGGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCTATCACTTGATAGATCA
GCTTTTCCAGAGAA
Found at i:76331 original size:3 final size:3
Alignment explanation
Indices: 76323--76451 Score: 222
Period size: 3 Copynumber: 43.0 Consensus size: 3
76313 CCATATTGGT
* *
76323 TTA TTA TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
76371 TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
76419 TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
76452 AATATATTAA
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 118 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:76990 original size:16 final size:16
Alignment explanation
Indices: 76969--77001 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
76959 AAAGAAACAT
76969 AAAAGAAAGAAAAGAA
1 AAAAGAAAGAAAAGAA
*
76985 AAAAGAAAGAAGAGAA
1 AAAAGAAAGAAAAGAA
77001 A
1 A
77002 CTTACTGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAAGAAAGAAAAGAA
Found at i:80872 original size:23 final size:21
Alignment explanation
Indices: 80845--80890 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
80835 TCACTTAATT
80845 ATTCAAATAATTTTGTTTTAGTA
1 ATTCAAATAATTTT-TTTTA-TA
* *
80868 ATTCAACTAGTTTTTTTTATA
1 ATTCAAATAATTTTTTTTATA
80889 AT
1 AT
80891 CATACATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 5 0.24
23 12 0.57
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.54
Consensus pattern (21 bp):
ATTCAAATAATTTTTTTTATA
Found at i:80992 original size:14 final size:14
Alignment explanation
Indices: 80975--81002 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
80965 AATGATGACA
80975 CGTCAATATCACCT
1 CGTCAATATCACCT
80989 CGTCAATATCACCT
1 CGTCAATATCACCT
81003 TTAACTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.36, G:0.07, T:0.29
Consensus pattern (14 bp):
CGTCAATATCACCT
Found at i:82957 original size:13 final size:12
Alignment explanation
Indices: 82907--82961 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 12
82897 CTAATTACTT
82907 TTTTAAATTTATA
1 TTTT-AATTTATA
82920 -TTTAATTT-TA
1 TTTTAATTTATA
82930 TGCTTTAATTT-TA
1 T--TTTAATTTATA
82943 TTTTAATTATATA
1 TTTTAATT-TATA
82956 TTTTAA
1 TTTTAA
82962 AATTTAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
10 2 0.05
11 12 0.32
12 4 0.11
13 19 0.51
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (12 bp):
TTTTAATTTATA
Found at i:82960 original size:24 final size:25
Alignment explanation
Indices: 82907--82967 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
82897 CTAATTACTT
* *
82907 TTTTAAATTTATATTTAATTTTATG
1 TTTTAAATTTATATTTAATTATATA
* *
82932 CTTTAATTTTAT-TTTAATTATATA
1 TTTTAAATTTATATTTAATTATATA
82956 TTTTAAAATTTA
1 TTTT-AAATTTA
82968 ATAATATTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
24 13 0.45
25 16 0.55
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTAAATTTATATTTAATTATATA
Found at i:85687 original size:18 final size:18
Alignment explanation
Indices: 85660--85694 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
85650 TGTTCGTCAA
*
85660 ATTTTGTTATTGATTTGG
1 ATTTTGTTATTCATTTGG
*
85678 ATTTTTTTATTCATTTG
1 ATTTTGTTATTCATTTG
85695 CTGTGCAGGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.03, G:0.14, T:0.66
Consensus pattern (18 bp):
ATTTTGTTATTCATTTGG
Found at i:86129 original size:15 final size:15
Alignment explanation
Indices: 86105--86136 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
86095 TCTTCTTTTC
*
86105 TTTTACGTTTTTACT
1 TTTTAAGTTTTTACT
86120 TTTTAAGTTTTTACT
1 TTTTAAGTTTTTACT
86135 TT
1 TT
86137 ATTTTCTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.09, G:0.06, T:0.69
Consensus pattern (15 bp):
TTTTAAGTTTTTACT
Found at i:92801 original size:14 final size:14
Alignment explanation
Indices: 92782--92828 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
92772 GACCAACCCA
92782 TATTTTCCCTTCTT
1 TATTTTCCCTTCTT
*
92796 TATTTTCACC--C-A
1 TATTTTC-CCTTCTT
92808 TATTTTCCCTTCTT
1 TATTTTCCCTTCTT
92822 TATTTTC
1 TATTTTC
92829 TTTACAACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
11 2 0.07
12 7 0.26
13 2 0.07
14 14 0.52
15 2 0.07
ACGTcount: A:0.13, C:0.28, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTTTCCCTTCTT
Found at i:92807 original size:26 final size:26
Alignment explanation
Indices: 92777--92828 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
92767 CTCTTGACCA
92777 ACCCATATTTTCCCTTCTTTATTTTC
1 ACCCATATTTTCCCTTCTTTATTTTC
92803 ACCCATATTTTCCCTTCTTTATTTTC
1 ACCCATATTTTCCCTTCTTTATTTTC
92829 TTTACAACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.31, G:0.00, T:0.54
Consensus pattern (26 bp):
ACCCATATTTTCCCTTCTTTATTTTC
Found at i:100533 original size:18 final size:19
Alignment explanation
Indices: 100510--100554 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
100500 ATTTGGAACT
*
100510 GATACT-CATAGGAGTATC
1 GATACTCCATAGAAGTATC
100528 GATACTCCCCATAGAAGTATC
1 GATACT--CCATAGAAGTATC
100549 GATACT
1 GATACT
100555 GAGCCATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 6 0.26
21 17 0.74
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (19 bp):
GATACTCCATAGAAGTATC
Found at i:100631 original size:20 final size:20
Alignment explanation
Indices: 100606--100656 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
100596 ACTCTGGGTG
100606 AGTATCGATACCCAATGGTC
1 AGTATCGATACCCAATGGTC
100626 AGTATCGATACCCAATGGTC
1 AGTATCGATACCCAATGGTC
*
100646 AGTATCAATAC
1 AGTATCGATAC
100657 TACTGACATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (20 bp):
AGTATCGATACCCAATGGTC
Done.