Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold332
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: 2744988
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 17
Found at i:2621273 original size:158 final size:158
Alignment explanation
Indices: 2620917--2621296 Score: 408
Period size: 158 Copynumber: 2.4 Consensus size: 158
2620907 ACAACGGGGC
* * * *
2620917 TGGAGTATCCCCTGATTATGGAAAATCGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCT
1 TGGAGTATCCCC-GATTATGAAAAATTGATGTTTTGGAAATAAAACCGGGGTTGGACTATCCCCT
* * * * * * * *
2620982 TAGAAATAATAGGGTTGAAGCATCCTTGATTATAGAAAATCGACATTTTAAAAATAAAATCGGGG
65 CAGAAATAACAGGGCTGAAGCATCCCTGATTATAGAAAATCAACAATTTAAAAATAAAACCGAGG
*
2621047 TTGGAGCATCCCCTCGAAAATAACGGGGT
130 TTGGAGCATCCCCTCGAAAATAACGGGAT
* * * * **
2621076 TGGAGTATCCCCGATTGTGAAAAATCT-AAGCTTTAGAAATAAGGCCGGGGTTGGACTATCTCCG
1 TGGAGTATCCCCGATTATGAAAAAT-TGATGTTTTGGAAATAAAACCGGGGTTGGACTATC-CC-
* * * * * * *
2621140 C-CA-AAATAACGGGGCTGGAGTATCCCTGATTGT-GAGAAATCAATAATTTAGAAATAAAGCCG
63 CTCAGAAATAACAGGGCTGAAGCATCCCTGATTATAGA-AAATCAACAATTTAAAAATAAAACCG
* *
2621202 AGGTTGGAGTATTCCCTCGAAAATAACGGGAT
127 AGGTTGGAGCATCCCCTCGAAAATAACGGGAT
* * *
2621234 TGGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAATCGGGGTTAGAGTATCCCC
1 TGGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGGGGTTGGACTATCCCC
2621297 AAGATGAAAA
Statistics
Matches: 179, Mismatches: 37, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
156 1 0.01
157 5 0.03
158 157 0.88
159 15 0.08
160 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (158 bp):
TGGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGGGGTTGGACTATCCCCTC
AGAAATAACAGGGCTGAAGCATCCCTGATTATAGAAAATCAACAATTTAAAAATAAAACCGAGGT
TGGAGCATCCCCTCGAAAATAACGGGAT
Found at i:2621295 original size:51 final size:50
Alignment explanation
Indices: 2621236--2621361 Score: 144
Period size: 50 Copynumber: 2.5 Consensus size: 50
2621226 AACGGGATTG
* * * ** * *
2621236 GAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAATCGGGGTTA
1 GAGTATCCCCGA-GATGAAAAATTAATATTTTAAAAATAAAACCGGCGTTA
* * * *
2621287 GAGTATCCCCAAGATGAAAAATCAATATTTTAAAAATAAAGCCGGCGTTG
1 GAGTATCCCCGAGATGAAAAATTAATATTTTAAAAATAAAACCGGCGTTA
2621337 GAGTATCCCCGAGATGAAAAATTAA
1 GAGTATCCCCGAGATGAAAAATTAA
2621362 AAAATTTAAC
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
50 51 0.82
51 11 0.18
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (50 bp):
GAGTATCCCCGAGATGAAAAATTAATATTTTAAAAATAAAACCGGCGTTA
Found at i:2624211 original size:28 final size:28
Alignment explanation
Indices: 2624179--2624251 Score: 137
Period size: 28 Copynumber: 2.6 Consensus size: 28
2624169 GGTTTGCCAC
2624179 CAACTTGTGTGGGCTTTTTGGGTGCTGG
1 CAACTTGTGTGGGCTTTTTGGGTGCTGG
2624207 CAACTTGTGTGGGCTTTTTGGGTGCTGG
1 CAACTTGTGTGGGCTTTTTGGGTGCTGG
*
2624235 CAACTTGTGTGGACTTT
1 CAACTTGTGTGGGCTTT
2624252 GGAAGAGGAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.10, C:0.15, G:0.36, T:0.40
Consensus pattern (28 bp):
CAACTTGTGTGGGCTTTTTGGGTGCTGG
Found at i:2624324 original size:41 final size:40
Alignment explanation
Indices: 2624279--2624515 Score: 183
Period size: 41 Copynumber: 5.7 Consensus size: 40
2624269 GAAGGCGCCA
* *
2624279 TCCTGCTCTTTGAGGATTAAGGAAAAGGAGAATGAAATGGG
1 TCCTGCTCTTTGAGGATAAAGGAAAAGGA-AATGAAATGCG
* *
2624320 TCCTGCTCTTTG-GGA-ACTAAGGAAAAAAGGAAATAAAATGCA
1 TCCTGCTCTTTGAGGATA--AAGG--AAAAGGAAATGAAATGCG
* * * * * *
2624362 TCCTGCCCTTCGAAGATAAAAGAAAAAGGAAATTAAATGTG
1 TCCTGCTCTTTGAGGAT-AAAGGAAAAGGAAATGAAATGCG
* *
2624403 TCCTGCTTTTTGAGGACAAAGGAAAAAGGAGAAT-AAAGTGCG
1 TCCTGCTCTTTGAGGATAAAGG-AAAAGGA-AATGAAA-TGCG
* * * *
2624445 TCCTGCTTTTTGAGAACTAGAAGAAAAAAAAGGAAATGAAGTGCG
1 TCCTGCTCTTTGAGGA-TA-AAG---GAAAAGGAAATGAAATGCG
2624490 TCCTGCTCTTTGAGGATAAAGGAAAA
1 TCCTGCTCTTTGAGGATAAAGGAAAA
2624516 AAGAAAAAAA
Statistics
Matches: 155, Mismatches: 25, Indels: 33
0.73 0.12 0.15
Matches are distributed among these distances:
40 11 0.07
41 53 0.34
42 39 0.25
43 16 0.10
44 5 0.03
45 22 0.14
46 9 0.06
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.23
Consensus pattern (40 bp):
TCCTGCTCTTTGAGGATAAAGGAAAAGGAAATGAAATGCG
Found at i:2624452 original size:42 final size:41
Alignment explanation
Indices: 2624279--2624631 Score: 243
Period size: 42 Copynumber: 8.4 Consensus size: 41
2624269 GAAGGCGCCA
** *
2624279 TCCTGCTCTTTGAGGATTAAGG-AAAAGGAGAATGAAA-TGGG
1 TCCTGCTCTTTGAGGACAAAGGAAAAAGGA-AAT-AAAGTGCG
* * *
2624320 TCCTGCTCTTTG-GGAACTAAGGAAAAAAGGAAATAAAATGCA
1 TCCTGCTCTTTGAGG-ACAAAGG-AAAAAGGAAATAAAGTGCG
* * * * * *
2624362 TCCTGCCCTTCGAAGATAAAAGAAAAAGGAAATTAAA-TGTG
1 TCCTGCTCTTTGAGGACAAAGGAAAAAGGAAA-TAAAGTGCG
*
2624403 TCCTGCTTTTTGAGGACAAAGGAAAAAGGAGAATAAAGTGCG
1 TCCTGCTCTTTGAGGACAAAGGAAAAAGGA-AATAAAGTGCG
* * * *
2624445 TCCTGCTTTTTGAGAACTAGAAGAAAAAAAAGGAAATGAAGTGCG
1 TCCTGCTCTTTGAGGAC-A-AAG--GAAAAAGGAAATAAAGTGCG
* * * * *
2624490 TCCTGCTCTTTGAGGATAAAGGAAAAAAGAAAAAAAAGGGCA
1 TCCTGCTCTTTGAGGACAAAGG-AAAAAGGAAATAAAGTGCG
** * * *
2624532 TCCTTTTATTTGAGGACAAAAAGGAAAATAAGGAAATAAAATGTG
1 TCCTGCTCTTTGAGGAC--AAAGG-AAA-AAGGAAATAAAGTGCG
* * * *
2624577 TCCTGCTCTTTGAGGACAAAGGAGAGAGG-GA-AAAG-GCA
1 TCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATAAAGTGCG
2624615 TCCTGCTCTTTGAGGAC
1 TCCTGCTCTTTGAGGAC
2624632 TAAAAAGTGC
Statistics
Matches: 247, Mismatches: 49, Indels: 35
0.75 0.15 0.11
Matches are distributed among these distances:
38 18 0.07
39 3 0.01
40 3 0.01
41 64 0.26
42 73 0.30
43 17 0.07
44 13 0.05
45 48 0.19
46 8 0.03
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (41 bp):
TCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATAAAGTGCG
Found at i:2624502 original size:87 final size:85
Alignment explanation
Indices: 2624301--2624635 Score: 283
Period size: 87 Copynumber: 3.9 Consensus size: 85
2624291 AGGATTAAGG
* * *
2624301 AAAAGGAGAATGAAATGGGTCCTGCTCTTTG-GGAACTAAGGAAAAAAGGAAATAAAATGCATCC
1 AAAAGGA-AATGAAATGTGTCCTGCTCTTTGAGG-ACAAAGG-AAAAAGGAAATAAAGTGCATCC
** * *
2624365 TGCCCTTCGA-AGA-T-AA-AAGA
63 TGCTTTTTGAGA-ACTAAAGAAAA
* * *
2624385 AAAAGGAAATTAAATGTGTCCTGCTTTTTGAGGACAAAGGAAAAAGGAGAATAAAGTGCGTCCTG
1 AAAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAAGGA-AATAAAGTGCATCCTG
2624450 CTTTTTGAGAACTAGAAGAAAA
65 CTTTTTGAGAACTA-AAGAAAA
* * * * * *
2624472 AAAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGATAAAGGAAAAAAGAAAAAAAAGGGCATCCT-
1 AAAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAGG-AAAAAGGAAATAAAGTGCATCCTG
* * * *
2624536 TTTATTTGAGGACAAAAAGGAAA
65 CTT-TTTGAGAAC-TAAAGAAAA
* * * * *
2624559 ATAAGGAAATAAAATGTGTCCTGCTCTTTGAGGACAAAGGAGAGAGG-GA-AAAG-GCATCCTGC
1 AAAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATAAAGTGCATCCTGC
* *
2624621 TCTTTGAGGACTAAA
66 TTTTTGAGAACTAAA
2624636 AAGTGCCACC
Statistics
Matches: 205, Mismatches: 35, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
82 11 0.05
83 62 0.30
84 16 0.08
85 1 0.00
86 8 0.04
87 99 0.48
88 8 0.04
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (85 bp):
AAAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATAAAGTGCATCCTGC
TTTTTGAGAACTAAAGAAAA
Found at i:2624683 original size:61 final size:61
Alignment explanation
Indices: 2624606--2625147 Score: 714
Period size: 61 Copynumber: 9.0 Consensus size: 61
2624596 AGGAGAGAGG
** * *
2624606 GAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAA
1 GAAAAGGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA
*
2624667 GAAAAGGC-TCCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAA
1 GAAAAGGCAT-CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA
*
2624728 GAGAAA-GCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAA
1 GA-AAAGGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA
* *
2624789 GAGAAA-GCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTATGTGGGCTTTGCAAA
1 GA-AAAGGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA
* *
2624850 GAGAAA-GCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTAGGCTTTGCAAA
1 GA-AAAGGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA
*
2624911 GAGAAA-GCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTTGGCTTT-AAAA
1 GA-AAAGGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA
* * * *
2624971 GGAAAAGGCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTATGTTGGCTTT-AAAA
1 -GAAAAGGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA
*** * *
2625032 GGAAAAGATGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAGCTTGTGTGGGCTTT-----
1 -GAAAAGGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA
* * **
2625089 G-AAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAA
1 GAAAAGGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
2625148 GACGTCCTGC
Statistics
Matches: 445, Mismatches: 27, Indels: 20
0.90 0.05 0.04
Matches are distributed among these distances:
55 49 0.11
56 1 0.00
60 7 0.02
61 384 0.86
62 4 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (61 bp):
GAAAAGGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA
Found at i:2624841 original size:183 final size:183
Alignment explanation
Indices: 2624606--2625149 Score: 797
Period size: 183 Copynumber: 3.0 Consensus size: 183
2624596 AGGAGAGAGG
* **
2624606 GAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
1 GAAAAGGCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTTGAAAAGAAA
2624671 AGGCTCCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGC
66 AGGCT-CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGC
2624736 ATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGA
130 ATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGA
* * *
2624791 G-AAA-GCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTATGTGGGCTTTGCAAAGAGA
1 GAAAAGGCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTTGAAAAGA-A
*
2624854 AA-GCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTAGGCTTTGCAAAGAGAAAG
65 AAGGC-TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAG
* *
2624918 CATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTTGGCTTTAAAAG-
129 CATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGA
*
2624972 GAAAAGGCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTATGTTGGCTTT-AAAAGGAA
1 GAAAAGGCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTTGAAAA-GAA
* *
2625036 AAGATG-TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAGCTTGTGTGGGCTTTG--AA-AG---
65 AAG--GCTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAA
* * **
2625094 GCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGA
128 GCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGA
2625150 CGTCCTGCTC
Statistics
Matches: 328, Mismatches: 22, Indels: 25
0.87 0.06 0.07
Matches are distributed among these distances:
177 49 0.15
180 2 0.01
181 3 0.01
182 13 0.04
183 252 0.77
184 7 0.02
185 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (183 bp):
GAAAAGGCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTTGAAAAGAAA
AGGCTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCA
TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGA
Found at i:2626245 original size:10 final size:8
Alignment explanation
Indices: 2626227--2626287 Score: 63
Period size: 8 Copynumber: 7.5 Consensus size: 8
2626217 AAGCAGGTTC
2626227 TTTTCTTT
1 TTTTCTTT
*
2626235 TCTCTCTTT
1 T-TTTCTTT
2626244 TTTTCTTTT
1 TTTTC-TTT
2626253 TTTTCTTT
1 TTTTCTTT
2626261 TTTT-TTT
1 TTTTCTTT
2626268 GTTTT-TTT
1 -TTTTCTTT
*
2626276 TTGTCTTT
1 TTTTCTTT
2626284 TTTT
1 TTTT
2626288 TAAAAAAAGG
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
7 6 0.13
8 24 0.53
9 15 0.33
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.85
Consensus pattern (8 bp):
TTTTCTTT
Found at i:2626247 original size:1 final size:1
Alignment explanation
Indices: 2626241--2626288 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
2626231 CTTTTCTCTC
* * * * *
2626241 TTTTTTTCTTTTTTTTCTTTTTTTTTTGTTTTTTTTTGTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2626289 AAAAAAAGGA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.06, G:0.04, T:0.90
Consensus pattern (1 bp):
T
Found at i:2626249 original size:17 final size:17
Alignment explanation
Indices: 2626227--2626264 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
2626217 AAGCAGGTTC
2626227 TTTTCTTTTCTCTCTTT
1 TTTTCTTTTCTCTCTTT
* *
2626244 TTTTCTTTTTTTTCTTT
1 TTTTCTTTTCTCTCTTT
2626261 TTTT
1 TTTT
2626265 TTTGTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTCTTTTCTCTCTTT
Found at i:2626253 original size:9 final size:9
Alignment explanation
Indices: 2626227--2626274 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
2626217 AAGCAGGTTC
2626227 TTTTCTTTT
1 TTTTCTTTT
* *
2626236 CTCTC-TTT
1 TTTTCTTTT
2626244 TTTTCTTTT
1 TTTTCTTTT
2626253 TTTTCTTTT
1 TTTTCTTTT
2626262 TTTT-TTGTT
1 TTTTCTT-TT
2626271 TTTT
1 TTTT
2626275 TTTGTCTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 8 0.24
9 25 0.76
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.85
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:2626288 original size:21 final size:20
Alignment explanation
Indices: 2626227--2626288 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
2626217 AAGCAGGTTC
*
2626227 TTTTCTTTTCTCTCTTTTTTT
1 TTTTTTTTTCTCT-TTTTTTT
* *
2626248 CTTTTTTTTCTTTTTTTTTT
1 TTTTTTTTTCTCTTTTTTTT
*
2626268 GTTTTTTTTTGTCTTTTTTTT
1 -TTTTTTTTTCTCTTTTTTTT
2626289 AAAAAAAGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 7 0.21
21 27 0.79
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.85
Consensus pattern (20 bp):
TTTTTTTTTCTCTTTTTTTT
Found at i:2628309 original size:10 final size:10
Alignment explanation
Indices: 2628294--2628324 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2628284 GTATCGATTT
2628294 TCACTGTTCA
1 TCACTGTTCA
2628304 TCACTGTTCA
1 TCACTGTTCA
*
2628314 TTACTGTTCA
1 TCACTGTTCA
2628324 T
1 T
2628325 GTATCGATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.19, C:0.26, G:0.10, T:0.45
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:2628353 original size:20 final size:20
Alignment explanation
Indices: 2628325--2628398 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
2628315 TACTGTTCAT
2628325 GTATCGATACATTATGAATA
1 GTATCGATACATTATGAATA
* * * *
2628345 GTATTGATATATCACTG-TTCA
1 GTATCGATACATTA-TGAAT-A
*
2628366 TGTATCGATACATTGTGAATA
1 -GTATCGATACATTATGAATA
2628387 GTATCGATACAT
1 GTATCGATACAT
2628399 CACTGTTCAT
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
20 24 0.59
21 6 0.15
22 11 0.27
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (20 bp):
GTATCGATACATTATGAATA
Found at i:2628367 original size:42 final size:42
Alignment explanation
Indices: 2628316--2628408 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
2628306 ACTGTTCATT
* *
2628316 ACTGTTCATGTATCGATACATTATGAATAGTATTGATATATC
1 ACTGTTCATGTATCGATACATTATGAATAGTATCGATACATC
*
2628358 ACTGTTCATGTATCGATACATTGTGAATAGTATCGATACATC
1 ACTGTTCATGTATCGATACATTATGAATAGTATCGATACATC
2628400 ACTGTTCAT
1 ACTGTTCAT
2628409 CACTGTTCAC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (42 bp):
ACTGTTCATGTATCGATACATTATGAATAGTATCGATACATC
Found at i:2628424 original size:17 final size:17
Alignment explanation
Indices: 2628398--2628432 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2628388 TATCGATACA
* *
2628398 TCACTGTTCATCACTGT
1 TCACTATTCAACACTGT
2628415 TCACTATTCAACACTGT
1 TCACTATTCAACACTGT
2628432 T
1 T
2628433 TACGTATCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.29, G:0.09, T:0.40
Consensus pattern (17 bp):
TCACTATTCAACACTGT
Found at i:2628500 original size:13 final size:13
Alignment explanation
Indices: 2628482--2628506 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2628472 TCACTATTCA
2628482 TGTATCGATACAG
1 TGTATCGATACAG
2628495 TGTATCGATACA
1 TGTATCGATACA
2628507 TTATGAATAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2640002 original size:79 final size:79
Alignment explanation
Indices: 2639870--2640249 Score: 233
Period size: 79 Copynumber: 4.8 Consensus size: 79
2639860 ACAACGGGGC
* * *** * *
2639870 TGGAGTATCCCCTGATTATGAAAAATTGGTGTTCTGAAAATAAAATCAGGGTTGGAGTATCTCCT
1 TGGAGCATCCCC-GATTATGAAAAATCGACATTTTGAAAATAAAATCAGGGTTGGAGTATCCCCT
2639935 C-AGAAATAATAGGGT
65 CGA-AAATAATAGGGT
* * **
2639950 TGGAGCATTCCTGATTAT-AGAAAATCGACATTTTGAAAATAAAATTGGGGTTGGAGTATCCCCT
1 TGGAGCATCCCCGATTATGA-AAAATCGACATTTTGAAAATAAAATCAGGGTTGGAGTATCCCCT
*
2640014 CGAAAATAATGGGGT
65 CGAAAATAATAGGGT
* * *** *
2640029 TGGAGTATCCCCGATTATGAAAAATCGA-AGCTTT-AGAAATAAGGCCGGGGTTGGAGTAT-CCC
1 TGGAGCATCCCCGATTATGAAAAATCGACA-TTTTGA-AAATAAAATCAGGGTTGGAGTATCCCC
* * *
2640091 TGCCAAAATAA-CGGAGC
64 T-CGAAAATAATAGG-GT
* * * ** * *
2640108 TGGAGTATCCCCGATTGTGAGAAATTAATATTTT-AGAAATAAAGTC-GAGGTTGGAGTATCCCC
1 TGGAGCATCCCCGATTATGAAAAATCGACATTTTGA-AAATAAAATCAG-GGTTGGAGTATCCCC
* * *
2640171 TTGGAAATAA-CGGAAGT
64 TCGAAAATAATAGG--GT
* * ** * * *
2640188 T-GAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAA-CCGAGGTTAGAGTATCCCC
1 TGGAGCATCCCCGATTATGAAAAATCGACATTTTGAAAATAAAATCAG-GGTTGGAGTATCCCC
2640250 GAGAAGAAAA
Statistics
Matches: 246, Mismatches: 41, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
78 11 0.04
79 216 0.88
80 19 0.08
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (79 bp):
TGGAGCATCCCCGATTATGAAAAATCGACATTTTGAAAATAAAATCAGGGTTGGAGTATCCCCTC
GAAAATAATAGGGT
Found at i:2640276 original size:50 final size:50
Alignment explanation
Indices: 2640189--2640314 Score: 137
Period size: 50 Copynumber: 2.5 Consensus size: 50
2640179 AACGGAAGTT
* ** * *
2640189 GAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACC-GAGGTTA
1 GAGTATCCCCGA-GATGAAAAATCAATATTTTAGAAATAAAACCAG-GGTTA
* ** *
2640240 GAGTATCCCCGAGAAGAAAAATCAATATTTTAGAAATAAAGTCAGGGTTG
1 GAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAACCAGGGTTA
*
2640290 GAGTATCCCCGAGATGAAAAGTCAA
1 GAGTATCCCCGAGATGAAAAATCAA
2640315 GAAATTTAAC
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
50 50 0.79
51 13 0.21
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (50 bp):
GAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAACCAGGGTTA
Found at i:2642619 original size:49 final size:51
Alignment explanation
Indices: 2642563--2642696 Score: 213
Period size: 50 Copynumber: 2.7 Consensus size: 51
2642553 AAAAATGCTT
*
2642563 GAATGTATCGATA-AATTGAAAAATGTATCGATACATCTAGGT-AAACCCA
1 GAATGTATCGATACAATTGAACAATGTATCGATACATCTAGGTAAAACCCA
*
2642612 GAATGTATCGATAGAA-TGAACAATGTATCGATACATCTAGGTAAAACCCA
1 GAATGTATCGATACAATTGAACAATGTATCGATACATCTAGGTAAAACCCA
*
2642662 GAATTTATCGATACAATT-AACAATGTATCGATACA
1 GAATGTATCGATACAATTGAACAATGTATCGATACA
2642697 AATTGTGAAA
Statistics
Matches: 79, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
49 38 0.48
50 40 0.51
51 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.27
Consensus pattern (51 bp):
GAATGTATCGATACAATTGAACAATGTATCGATACATCTAGGTAAAACCCA
Found at i:2643580 original size:83 final size:82
Alignment explanation
Indices: 2643318--2643582 Score: 276
Period size: 83 Copynumber: 3.3 Consensus size: 82
2643308 TTGAGAATAT
* ** * *
2643318 GAAAAAT-GAGATTGGAGTATCCTCTT-TTAGAGAGATAGGGTTAAAGTATCCCAGAGAATATAA
1 GAAAAATAG-GATTGGAGTATCCT-TTATTAGAGAGATGGGGTTGGAGTATCCCTGAGAATGTAA
2643381 ATTCAAGA--TTTTTTTAA
64 ATTCAAGATTTTTTTTTAA
* * * ** *
2643398 GAAAAATAGGGTT-GAGTATTCCCTCA-TAGA-AG-TGAAGTTGGAGTATCCCTAAGAATGTAAA
1 GAAAAATAGGATTGGAGTA-TCCTTTATTAGAGAGATGGGGTTGGAGTATCCCTGAGAATGTAAA
2643459 TTCAAGATTTTTTTTATAA
65 TTCAAGATTTTTTTT-TAA
* * *
2643478 GAATAACAGGATTGGAGTATCCTTTATTAGAGAGATGGGGTTGGAGTATCCTTGAGAATGTAAAT
1 GAAAAATAGGATTGGAGTATCCTTTATTAGAGAGATGGGGTTGGAGTATCCCTGAGAATGTAAAT
2643543 TCAAGATTTTTTTTGTAA
66 TCAAGATTTTTTTT-TAA
* * *
2643561 GAAAAATGGGGTTGTAGTATCC
1 GAAAAATAGGATTGGAGTATCC
2643583 CCTCAGAGAG
Statistics
Matches: 149, Mismatches: 26, Indels: 17
0.78 0.14 0.09
Matches are distributed among these distances:
77 28 0.19
78 2 0.01
79 16 0.11
80 31 0.21
81 10 0.07
82 2 0.01
83 60 0.40
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.34
Consensus pattern (82 bp):
GAAAAATAGGATTGGAGTATCCTTTATTAGAGAGATGGGGTTGGAGTATCCCTGAGAATGTAAAT
TCAAGATTTTTTTTTAA
Found at i:2643593 original size:83 final size:80
Alignment explanation
Indices: 2643345--2643612 Score: 269
Period size: 83 Copynumber: 3.3 Consensus size: 80
2643335 TATCCTCTTT
* ** * *
2643345 TAGAGAGATAGGGTTAAAGTATCCCAGAGAATATAAATTCAAGA--TTTTTTTAAGAAAAATAGG
1 TAGAGAGATGGGGTTGGAGTATCCCTGAGAATGTAAATTCAAGATTTTTTTTTAAGAAAAATAGG
2643408 GTTGAGTATTCCCTCA
66 GTTGAGTA-TCCCTCA
** * * *
2643424 TAGA-AG-TGAAGTTGGAGTATCCCTAAGAATGTAAATTCAAGATTTTTTTTATAAGAATAACAG
1 TAGAGAGATGGGGTTGGAGTATCCCTGAGAATGTAAATTCAAGATTTTTTTT-TAAGAAAAATAG
* * *
2643487 GATTGGAGTATCCTTTA
65 GGTT-GAGTATCCCTCA
* *
2643504 TTAGAGAGATGGGGTTGGAGTATCCTTGAGAATGTAAATTCAAGATTTTTTTTGTAAGAAAAATG
1 -TAGAGAGATGGGGTTGGAGTATCCCTGAGAATGTAAATTCAAGATTTTTTTT-TAAGAAAAATA
2643569 GGGTTGTAGTATCCC-C-
64 GGGTTG-AGTATCCCTCA
* *
2643585 TCAGAGAGATGGAGTTAGAGTATTCCCT
1 T-AGAGAGATGGGGTTGGAGTA-TCCCT
2643613 AAGGATGAAA
Statistics
Matches: 152, Mismatches: 27, Indels: 17
0.78 0.14 0.09
Matches are distributed among these distances:
77 28 0.18
78 2 0.01
79 10 0.07
80 19 0.12
81 27 0.18
82 7 0.05
83 59 0.39
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.33
Consensus pattern (80 bp):
TAGAGAGATGGGGTTGGAGTATCCCTGAGAATGTAAATTCAAGATTTTTTTTTAAGAAAAATAGG
GTTGAGTATCCCTCA
Found at i:2647878 original size:20 final size:20
Alignment explanation
Indices: 2647835--2647902 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
2647825 TGCATGGTCC
***
2647835 TGTATCGATACATTTCAGACA
1 TGTATCGATACA-TTCACTTA
*
2647856 TGTATTGATACATTCACTTA
1 TGTATCGATACATTCACTTA
*
2647876 TGTATCGATACATTTACTTA
1 TGTATCGATACATTCACTTA
2647896 TTGTATC
1 -TGTATC
2647903 AATATAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
20 23 0.57
21 17 0.43
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTCACTTA
Found at i:2649776 original size:55 final size:55
Alignment explanation
Indices: 2649680--2649791 Score: 143
Period size: 55 Copynumber: 2.0 Consensus size: 55
2649670 AACTTCAGGT
* * * * * * *
2649680 ACTATGCTCAGCTACTCTCATTTCTATTGGTTCTACCATACAGAGTAGTTGTGCA
1 ACTATGCTCAACTACTCTCATTCCCATTGGTTCTACAATACAAAGTAATCGTGCA
* *
2649735 ACTATGCTCAACTACTCTCATTCCCATTGGTTTTGCAATACAAAGTAATCGTGCA
1 ACTATGCTCAACTACTCTCATTCCCATTGGTTCTACAATACAAAGTAATCGTGCA
2649790 AC
1 AC
2649792 AATTCTAGGT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (55 bp):
ACTATGCTCAACTACTCTCATTCCCATTGGTTCTACAATACAAAGTAATCGTGCA
Found at i:2658436 original size:30 final size:27
Alignment explanation
Indices: 2658378--2658436 Score: 64
Period size: 30 Copynumber: 2.1 Consensus size: 27
2658368 AATATATAAA
** *
2658378 TATTAATATAAAAATAATTTTTATTTT
1 TATTAATATAAAAATAATTTGAACTTT
2658405 TATTAATATTTAAACAATAATTTGAACTTT
1 TATTAATA--TAAA-AATAATTTGAACTTT
2658435 TA
1 TA
2658437 AGCTAGGTCG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 8 0.31
29 4 0.15
30 14 0.54
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (27 bp):
TATTAATATAAAAATAATTTGAACTTT
Found at i:2659919 original size:19 final size:20
Alignment explanation
Indices: 2659895--2659943 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
2659885 TTTCATGGTA
2659895 TATCGATACAAAG-AACATG
1 TATCGATACAAAGCAACATG
*
2659914 TATCGATACTAAGCAACATG
1 TATCGATACAAAGCAACATG
*
2659934 TATCAATACA
1 TATCGATACA
2659944 TTTGGACATG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.24
Consensus pattern (20 bp):
TATCGATACAAAGCAACATG
Found at i:2660697 original size:41 final size:41
Alignment explanation
Indices: 2660652--2660734 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
2660642 TTTCTCCCCC
*
2660652 TTAACAATATATTACACAAATTCTCCCTTTTCTAAAACAAT
1 TTAACAATATATTACACAAATTCTCCCCTTTCTAAAACAAT
*
2660693 TTAACAATATGTTACACAAATTCTCCCCTTTCTAAAACAAT
1 TTAACAATATATTACACAAATTCTCCCCTTTCTAAAACAAT
2660734 T
1 T
2660735 ATTAACAACT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.40, C:0.23, G:0.01, T:0.36
Consensus pattern (41 bp):
TTAACAATATATTACACAAATTCTCCCCTTTCTAAAACAAT
Found at i:2664431 original size:58 final size:56
Alignment explanation
Indices: 2664364--2664801 Score: 375
Period size: 58 Copynumber: 7.6 Consensus size: 56
2664354 TCAAGCATTT
* *
2664364 TTTAGGTCATTTTCCATGATCTAGGTATTTTTATGCAAATTTCATGTAATTTGGGTCA
1 TTTAGGTCATTTTTCATGATCTAGG-ACTTTTATGC-AATTTCATGTAATTTGGGTCA
* * * *
2664422 TTTAGGTCATTTTCCATGATCTAGAGACTTTTATGTC-ATTTTATGTATTTTGATGTCA
1 TTTAGGTCATTTTTCATGATCTAG-GACTTTTATG-CAATTTCATGTAATTTG-GGTCA
* * * *
2664480 TTTAGGTCATTTTTCATGATCTAGGAATTTGGATGCAATTT--TGTGAATTTTGATCA
1 TTTAGGTCATTTTTCATGATCTAGGACTTT-TATGCAATTTCATGT-AATTTGGGTCA
* * * *
2664536 ATTAAGTCATTTTTCATGATCTAGAGACTTTTATGCAATTTTATG-AATATTGAGGTTA
1 TTTAGGTCATTTTTCATGATCTAG-GACTTTTATGCAATTTCATGTAAT-TTG-GGTCA
* * * *
2664594 TTTAGGTCA-TTTTCTATTATCTAGGGATTTTTATGCAATTTCATGTATGTAGTTGGGGCCA
1 TTTAGGTCATTTTTC-ATGATCTA-GGACTTTTATGCAATTTCATGTA---A-TTTGGGTCA
* * * *
2664655 TTTGGGTTATTTTTCATGGTCTAGGACTTTTATGCAATTTCATGT-AGTTGGGATCA
1 TTTAGGTCATTTTTCATGATCTAGGACTTTTATGCAATTTCATGTAATTTGGG-TCA
* * * * * *
2664711 TTAAAGTCATTTTTTATGATCTAGGGACTTTTATGCAATTTCATGTAGTTAGGATCA
1 TTTAGGTCATTTTTCATGATCTA-GGACTTTTATGCAATTTCATGTAATTTGGGTCA
* * * *
2664768 TTAAAGTTATTTTTTATGATCTAGGGACTTTTAT
1 TTTAGGTCATTTTTCATGATCTA-GGACTTTTAT
2664802 ATAATTATAT
Statistics
Matches: 313, Mismatches: 45, Indels: 45
0.78 0.11 0.11
Matches are distributed among these distances:
55 4 0.01
56 60 0.19
57 93 0.30
58 106 0.34
59 4 0.01
60 21 0.07
61 16 0.05
62 8 0.03
63 1 0.00
ACGTcount: A:0.25, C:0.10, G:0.18, T:0.47
Consensus pattern (56 bp):
TTTAGGTCATTTTTCATGATCTAGGACTTTTATGCAATTTCATGTAATTTGGGTCA
Found at i:2664435 original size:29 final size:29
Alignment explanation
Indices: 2664403--2664497 Score: 79
Period size: 29 Copynumber: 3.2 Consensus size: 29
2664393 TTTATGCAAA
*
2664403 TTTCATGTAATTTGGGTCATTTAGGTCAT
1 TTTCATGTAATTTGAGTCATTTAGGTCAT
* * * *
2664432 TTTCCATG--ATCTAGAGACTTTTATGTCAT
1 TTT-CATGTAAT-TTGAGTCATTTAGGTCAT
*
2664461 TTT-ATGTATTTTGATGTCATTTAGGTCATT
1 TTTCATGTAATTTGA-GTCATTTAGGTCA-T
2664491 TTTCATG
1 TTTCATG
2664498 ATCTAGGAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
27 3 0.06
28 5 0.10
29 30 0.61
30 8 0.16
31 3 0.06
ACGTcount: A:0.21, C:0.12, G:0.17, T:0.51
Consensus pattern (29 bp):
TTTCATGTAATTTGAGTCATTTAGGTCAT
Found at i:2664465 original size:10 final size:10
Alignment explanation
Indices: 2664450--2664492 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
2664440 ATCTAGAGAC
2664450 TTTTATGTCA
1 TTTTATGTCA
2664460 TTTTATGT-A
1 TTTTATGTCA
2664469 TTTTGATGTCA
1 TTTT-ATGTCA
*
2664480 -TTTAGGTCA
1 TTTTATGTCA
2664489 TTTT
1 TTTT
2664493 TCATGATCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
9 10 0.34
10 18 0.62
11 1 0.03
ACGTcount: A:0.19, C:0.07, G:0.14, T:0.60
Consensus pattern (10 bp):
TTTTATGTCA
Found at i:2664566 original size:114 final size:114
Alignment explanation
Indices: 2664364--2664801 Score: 370
Period size: 114 Copynumber: 3.8 Consensus size: 114
2664354 TCAAGCATTT
* * * * *
2664364 TTTAGGTCATTTTCCATGATCTAGGTATTTTTATGCAAATTTCATGTAATTTGGGTCATTTAGGT
1 TTTAGGTCATTTTTCATGATCTAGGAATTTTTATGC-AATTT-ATGTAATTTGGATCAATTAAGT
* * *
2664429 CATTTTCCATGATCTAGAGACTTTTATGTC-ATTTTATGTATTTTGATGTCA
64 CATTTTCCATGATCTAGAGACTTTTATG-CAATTTTATGAATATTGAGGTCA
** *
2664480 TTTAGGTCATTTTTCATGATCTAGGAATTTGGATGCAATTT-TGTGAATTTTGATCAATTAAGTC
1 TTTAGGTCATTTTTCATGATCTAGGAATTTTTATGCAATTTATGT-AATTTGGATCAATTAAGTC
* *
2664544 ATTTTTCATGATCTAGAGACTTTTATGCAATTTTATGAATATTGAGGTTA
65 ATTTTCCATGATCTAGAGACTTTTATGCAATTTTATGAATATTGAGGTCA
* * * ** *
2664594 TTTAGGTCA-TTTTCTATTATCTAGGGATTTTTATGCAATTTCATGTATGTAGTTGGGGCCATTT
1 TTTAGGTCATTTTTC-ATGATCTAGGAATTTTTATGCAATTT-ATGTA---A-TTTGGATCAATT
** * * * *
2664658 GGGTTATTTTTCATGGTCTAG-GACTTTTATGCAATTTCATG--TAGTTG-GGATCA
60 AAGTCATTTTCCATGATCTAGAGACTTTTATGCAATTTTATGAATA-TTGAGG-TCA
* * * * * * *
2664711 TTAAAGTCATTTTTTATGATCTAGGGACTTTTATGCAATTTCATGTAGTTAGGATC-ATTAAAGT
1 TTTAGGTCATTTTTCATGATCTAGGAATTTTTATGCAATTT-ATGTAATTTGGATCAATT-AAGT
* ** *
2664775 TATTTTTTATGATCTAGGGACTTTTAT
64 CATTTTCCATGATCTAGAGACTTTTAT
2664802 ATAATTATAT
Statistics
Matches: 266, Mismatches: 42, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
112 2 0.01
113 31 0.12
114 98 0.37
115 6 0.02
116 39 0.15
117 42 0.16
118 24 0.09
119 24 0.09
ACGTcount: A:0.25, C:0.10, G:0.18, T:0.47
Consensus pattern (114 bp):
TTTAGGTCATTTTTCATGATCTAGGAATTTTTATGCAATTTATGTAATTTGGATCAATTAAGTCA
TTTTCCATGATCTAGAGACTTTTATGCAATTTTATGAATATTGAGGTCA
Found at i:2665794 original size:13 final size:13
Alignment explanation
Indices: 2665770--2665804 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
2665760 CAGGCATAAA
2665770 ATTATCAATATTTG
1 ATTAT-AATATTTG
2665784 ATTATAATATTTG
1 ATTATAATATTTG
2665797 ATTATAAT
1 ATTATAAT
2665805 TCCCTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (13 bp):
ATTATAATATTTG
Found at i:2668266 original size:12 final size:12
Alignment explanation
Indices: 2668249--2668286 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2668239 ACATTAATAA
2668249 ATTTATCCATTC
1 ATTTATCCATTC
*
2668261 ATTTATGCATTC
1 ATTTATCCATTC
2668273 A-TTATCACATTC
1 ATTTATC-CATTC
2668285 AT
1 AT
2668287 GTATGTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 4 0.18
12 18 0.82
ACGTcount: A:0.29, C:0.21, G:0.03, T:0.47
Consensus pattern (12 bp):
ATTTATCCATTC
Found at i:2669314 original size:24 final size:24
Alignment explanation
Indices: 2669282--2669329 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
2669272 CAAACATGAG
*
2669282 TGATTTAGTGTTAATGGGGGAAAA
1 TGATTTAGTGTTAATGGAGGAAAA
2669306 TGATTTAGTGTTAATGGAGGAAAA
1 TGATTTAGTGTTAATGGAGGAAAA
2669330 AGAAGCAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.33
Consensus pattern (24 bp):
TGATTTAGTGTTAATGGAGGAAAA
Found at i:2671185 original size:52 final size:52
Alignment explanation
Indices: 2671107--2671214 Score: 173
Period size: 52 Copynumber: 2.1 Consensus size: 52
2671097 TACCTTTGTA
* * *
2671107 CACATCATTTGTGTCTATATATCCTTTCTTTCTAAGCAAAGAACTATGGCTT
1 CACATCATTTGGGTCTATATATCCTTTCATTCTAAACAAAGAACTATGGCTT
*
2671159 CACATCATTTGGGTCTATATATCCTTTCATTCTAAACCAAGAACTATGGCTT
1 CACATCATTTGGGTCTATATATCCTTTCATTCTAAACAAAGAACTATGGCTT
2671211 -ACAT
1 CACAT
2671215 TACATACTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
51 4 0.08
52 48 0.92
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (52 bp):
CACATCATTTGGGTCTATATATCCTTTCATTCTAAACAAAGAACTATGGCTT
Found at i:2672856 original size:56 final size:56
Alignment explanation
Indices: 2672796--2673158 Score: 386
Period size: 56 Copynumber: 6.5 Consensus size: 56
2672786 GCTTTATTTG
* * *
2672796 AAATTGGCACCAAAATGAAAAAGCCCAAGAATAGTTGATAGGTTTTGTCCTAGTTA
1 AAATTGGCACCAAAATGAGAAAGCCCAAGAACAGTTGATAGGTTTTGTCCCAGTTA
* * *
2672852 AAATTGGCACCAAAATGAGAAAGCCCAAGAGCAGTTGATAGGTTTCGTCCCAGCTA
1 AAATTGGCACCAAAATGAGAAAGCCCAAGAACAGTTGATAGGTTTTGTCCCAGTTA
* * *
2672908 AAATTGGCAACAAAATGAGAAAGCCCAAGAACAGTTGATAGGTTTTGTCCCACTTG
1 AAATTGGCACCAAAATGAGAAAGCCCAAGAACAGTTGATAGGTTTTGTCCCAGTTA
* * *
2672964 AAATAGGCACCAAAATGAGAAAGCCCAAGAGCAGTTGATAGGTTTTGTCCCAGTTG
1 AAATTGGCACCAAAATGAGAAAGCCCAAGAACAGTTGATAGGTTTTGTCCCAGTTA
* * * * * ** * *
2673020 AAATTGGCACTAAAATGAGATAGCGCAAGAATAGTTGATGGGTTTCATCCTAGCTA
1 AAATTGGCACCAAAATGAGAAAGCCCAAGAACAGTTGATAGGTTTTGTCCCAGTTA
* * * * * * ** ** * * * *
2673076 AAATTAGCATCTAAATGAGACAGCCTAATAGTAACTGATAAGTTTTGTCCTAATTG
1 AAATTGGCACCAAAATGAGAAAGCCCAAGAACAGTTGATAGGTTTTGTCCCAGTTA
**
2673132 AAATAAGCACCAAAATGA-AAAGCCCAA
1 AAATTGGCACCAAAATGAGAAAGCCCAA
2673159 TATAGTTAGC
Statistics
Matches: 256, Mismatches: 51, Indels: 1
0.83 0.17 0.00
Matches are distributed among these distances:
55 7 0.03
56 249 0.97
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.24
Consensus pattern (56 bp):
AAATTGGCACCAAAATGAGAAAGCCCAAGAACAGTTGATAGGTTTTGTCCCAGTTA
Found at i:2672993 original size:168 final size:167
Alignment explanation
Indices: 2672793--2673158 Score: 471
Period size: 168 Copynumber: 2.2 Consensus size: 167
2672783 ATAGCTTTAT
* * *
2672793 TTGAAATTGGCACCAAAATGAAAAAGCCCAAGAATAGTTGATAGGTTTTGTCCTAGTTAAAATTG
1 TTGAAATAGGCACCAAAATG-AAAAGCCCAAGAACAGTTGATAGGTTTTGTCCCAGTTAAAATTG
* * *
2672858 GCACCAAAATGAGAAAGCCCAAGAGCAGTTGATAGGTTTCGTCCCAGCTAAAATTGGCAACAAAA
65 GCACCAAAATGAGAAAGCCCAAGAACAGTTGATAGGTTTCATCCCAGCTAAAATTAGCAACAAAA
** * *
2672923 TGAGAAAGCCCAAGAACAGTTGATAGGTTTTGTCCCAC
130 TGAGAAAGCCCAAGAACAACTGATAAGTTTTGTCCCAA
* *
2672961 TTGAAATAGGCACCAAAATGAGAAAGCCCAAGAGCAGTTGATAGGTTTTGTCCCAGTTGAAATTG
1 TTGAAATAGGCACCAAAATGA-AAAGCCCAAGAACAGTTGATAGGTTTTGTCCCAGTTAAAATTG
* * * * * * * *
2673026 GCACTAAAATGAGATAGCGCAAGAATAGTTGATGGGTTTCATCCTAGCTAAAATTAGCATCTAAA
65 GCACCAAAATGAGAAAGCCCAAGAACAGTTGATAGGTTTCATCCCAGCTAAAATTAGCAACAAAA
* * * ** *
2673091 TGAGACAGCCTAATAGTAACTGATAAGTTTTGTCCTAA
130 TGAGAAAGCCCAAGAACAACTGATAAGTTTTGTCCCAA
*
2673129 TTGAAATAAGCACCAAAATGAAAAGCCCAA
1 TTGAAATAGGCACCAAAATGAAAAGCCCAA
2673159 TATAGTTAGC
Statistics
Matches: 170, Mismatches: 27, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
167 10 0.06
168 160 0.94
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (167 bp):
TTGAAATAGGCACCAAAATGAAAAGCCCAAGAACAGTTGATAGGTTTTGTCCCAGTTAAAATTGG
CACCAAAATGAGAAAGCCCAAGAACAGTTGATAGGTTTCATCCCAGCTAAAATTAGCAACAAAAT
GAGAAAGCCCAAGAACAACTGATAAGTTTTGTCCCAA
Found at i:2673115 original size:112 final size:112
Alignment explanation
Indices: 2672793--2673158 Score: 432
Period size: 112 Copynumber: 3.3 Consensus size: 112
2672783 ATAGCTTTAT
* * *
2672793 TTGAAATTGGCACCAAAATGAAAAAGCCCAAGAATAGTTGATAGGTTTTGTCCTAGTTAAAATTG
1 TTGAAATTGGCACCAAAATGAGAAAGCCCAAGAATAGTTGATAGGTTTTGTCCTAGCTAAAATTA
*
2672858 GCACCAAAATGAGAAAGCCCAAGAGCAGTTGATAGGTTTCGTCCCAG
66 GCACCAAAATGAGAAAGCCCAAGAGCAGTTGATAGGTTTTGTCCCAG
* * * * * *
2672905 CTAAAATTGGCAACAAAATGAGAAAGCCCAAGAACAGTTGATAGGTTTTGTCCCA-CTTGAAA-T
1 TTGAAATTGGCACCAAAATGAGAAAGCCCAAGAATAGTTGATAGGTTTTGTCCTAGC-TAAAATT
2672968 AGGCACCAAAATGAGAAAGCCCAAGAGCAGTTGATAGGTTTTGTCCCAG
65 A-GCACCAAAATGAGAAAGCCCAAGAGCAGTTGATAGGTTTTGTCCCAG
* * * * **
2673017 TTGAAATTGGCACTAAAATGAGATAGCGCAAGAATAGTTGATGGGTTTCATCCTAGCTAAAATTA
1 TTGAAATTGGCACCAAAATGAGAAAGCCCAAGAATAGTTGATAGGTTTTGTCCTAGCTAAAATTA
* * * * * * ** * * *
2673082 GCATCTAAATGAGACAGCCTAATAGTAACTGATAAGTTTTGTCCTAA
66 GCACCAAAATGAGAAAGCCCAAGAGCAGTTGATAGGTTTTGTCCCAG
**
2673129 TTGAAATAAGCACCAAAATGA-AAAGCCCAA
1 TTGAAATTGGCACCAAAATGAGAAAGCCCAA
2673159 TATAGTTAGC
Statistics
Matches: 212, Mismatches: 38, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
111 8 0.04
112 201 0.95
113 3 0.01
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (112 bp):
TTGAAATTGGCACCAAAATGAGAAAGCCCAAGAATAGTTGATAGGTTTTGTCCTAGCTAAAATTA
GCACCAAAATGAGAAAGCCCAAGAGCAGTTGATAGGTTTTGTCCCAG
Found at i:2673504 original size:21 final size:22
Alignment explanation
Indices: 2673478--2673521 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
2673468 GTAGGTTGGT
2673478 ACAAAAAATGAAAAAATA-AAA
1 ACAAAAAATGAAAAAATAGAAA
*
2673499 ACAAAAAATTAAAAAATAGAAA
1 ACAAAAAATGAAAAAATAGAAA
2673521 A
1 A
2673522 TAAGAAGCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.11
Consensus pattern (22 bp):
ACAAAAAATGAAAAAATAGAAA
Found at i:2681107 original size:50 final size:52
Alignment explanation
Indices: 2681045--2681160 Score: 134
Period size: 51 Copynumber: 2.3 Consensus size: 52
2681035 TTATTTTTGA
**
2681045 GGGGATACTCCAACCCT-ATTTTTATTT-TCAAAA-AT-TAATTTTTCACAATC
1 GGGGATACTCCAACCCTCAGCTTTATTTCT-AAAATATCT-ATTTTTCACAATC
*
2681095 GGGGATACTCCAA-CCTCGGCTTTATTTCTAAAATATCTATTTTTCACAATC
1 GGGGATACTCCAACCCTCAGCTTTATTTCTAAAATATCTATTTTTCACAATC
* *
2681146 GAGGATACTTCAACC
1 GGGGATACTCCAACC
2681161 TCATTATTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
49 3 0.05
50 24 0.43
51 27 0.48
52 2 0.04
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.36
Consensus pattern (52 bp):
GGGGATACTCCAACCCTCAGCTTTATTTCTAAAATATCTATTTTTCACAATC
Found at i:2681230 original size:129 final size:129
Alignment explanation
Indices: 2680986--2681236 Score: 326
Period size: 129 Copynumber: 1.9 Consensus size: 129
2680976 CATTAATGTT
* * * *
2680986 TTTATTTCTAAAATACCAAATTTTCACCATCGGGGATACTCCAACCTCGTTATTTTTGAGGGGAT
1 TTTATTTCTAAAATACCAAATTTTCACAATCGAGGATACTCCAACCTCATTATTTTCGAGGGGAT
* ** * *
2681051 ACTCCAACCCTATTTTTATTTTCAAAAATTAATTTTTCACAATCGGGGATACTCCAACCTCGGC
66 ACTCCAACCCTAGTTTTATTTTCAAAAACCAATTTTCCACAATCGAGGATACTCCAACCTCGGC
* * * *
2681115 TTTATTTCTAAAATATCTATTTTTCACAATCGAGGATACTTCAACCTCATTATTTTCGAGGGGAT
1 TTTATTTCTAAAATACCAAATTTTCACAATCGAGGATACTCCAACCTCATTATTTTCGAGGGGAT
* * *
2681180 ACTCCAACCCTGGTTTTATTTAT-AAAACACCAATTTTCCATAAT-TAGGATACTCCAA
66 ACTCCAACCCTAGTTTTATTT-TCAAAA-ACCAATTTTCCACAATCGAGGATACTCCAA
2681237 TCTCATTATT
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
129 91 0.88
130 13 0.12
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (129 bp):
TTTATTTCTAAAATACCAAATTTTCACAATCGAGGATACTCCAACCTCATTATTTTCGAGGGGAT
ACTCCAACCCTAGTTTTATTTTCAAAAACCAATTTTCCACAATCGAGGATACTCCAACCTCGGC
Found at i:2681256 original size:78 final size:79
Alignment explanation
Indices: 2681095--2681442 Score: 362
Period size: 79 Copynumber: 4.4 Consensus size: 79
2681085 TTTCACAATC
* * * * * * *
2681095 GGGGATACTCCAA-CCTCGGCTTTATTTCTAAAATATCTATTTTTCACAATCGAGGATACTTCAA
1 GGGGATACTCCAACCCT-GGTTTTATTTCCAAAACATCGATTTTCCACAATTGAGGATACTCCAA
2681159 CCTCATTATTTTCGA
65 CCTCATTATTTTCGA
** * * * *
2681174 GGGGATACTCCAACCCTGGTTTTATTTATAAAACACCAATTTTCCATAATT-AGGATACTCCAAT
1 GGGGATACTCCAACCCTGGTTTTATTTCCAAAACATCGATTTTCCACAATTGAGGATACTCCAAC
2681238 CTCATTATTTTCGA
66 CTCATTATTTTCGA
* * * * *
2681252 GGGGATATTCCAA-CCTCGGTTTTATTTCCAAAACATCGATTTTTCATAATTGCGGGTACTCCAA
1 GGGGATACTCCAACCCT-GGTTTTATTTCCAAAACATCGATTTTCCACAATTGAGGATACTCCAA
* *
2681316 CCCCGTTATTTTCGA
65 CCTCATTATTTTCGA
* ** * * * * *
2681331 GGGGATACTCTAACCCCAGCTTTATTTCCAAAACATTGGTTTTCCACCATTGGGGATACTCCAA-
1 GGGGATACTCCAACCCTGGTTTTATTTCCAAAACATCGATTTTCCACAATTGAGGATACTCCAAC
*
2681395 CTCCATTATTTCCGA
66 CT-CATTATTTTCGA
* *
2681410 GGGGATACTCCAACCCTGTTTTTATCTCCAAAA
1 GGGGATACTCCAACCCTGGTTTTATTTCCAAAA
2681443 TATTATATTT
Statistics
Matches: 222, Mismatches: 42, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
77 3 0.01
78 67 0.30
79 147 0.66
80 5 0.02
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.34
Consensus pattern (79 bp):
GGGGATACTCCAACCCTGGTTTTATTTCCAAAACATCGATTTTCCACAATTGAGGATACTCCAAC
CTCATTATTTTCGA
Found at i:2681329 original size:157 final size:158
Alignment explanation
Indices: 2681095--2681442 Score: 405
Period size: 157 Copynumber: 2.2 Consensus size: 158
2681085 TTTCACAATC
* * * * *
2681095 GGGGATACTCCAACCTCGGCTTTATTTCTAAAATATCTATTTTTCACAATCGAGGATACTTCAAC
1 GGGGATACTCCAACCTCGGTTTTATTTCCAAAACATCGATTTTTCACAATCGAGGATACTCCAAC
* ** * * *
2681160 CTCATTATTTTCGAGGGGATACTCCAACCCTGGTTTTATTTATAAAACACCAATTTTCCATAATT
66 CCCATTATTTTCGAGGGGATACTCCAACCCCAGCTTTATTTACAAAACACCAATTTTCCACAATT
*
2681225 -AGGATACTCCAA-TCTCATTATTTTCGA
131 GAGGATACTCCAACTC-CATTATTTCCGA
* * * * *
2681252 GGGGATATTCCAACCTCGGTTTTATTTCCAAAACATCGATTTTTCATAATTGCGGGTACTCCAAC
1 GGGGATACTCCAACCTCGGTTTTATTTCCAAAACATCGATTTTTCACAATCGAGGATACTCCAAC
* * * **** *
2681317 CCCGTTATTTTCGAGGGGATACTCTAACCCCAGCTTTATTTCCAAAACATTGGTTTTCCACCATT
66 CCCATTATTTTCGAGGGGATACTCCAACCCCAGCTTTATTTACAAAACACCAATTTTCCACAATT
*
2681382 GGGGATACTCCAACTCCATTATTTCCGA
131 GAGGATACTCCAACTCCATTATTTCCGA
* *
2681410 GGGGATACTCCAACC-CTGTTTTTATCTCCAAAA
1 GGGGATACTCCAACCTC-GGTTTTATTTCCAAAA
2681443 TATTATATTT
Statistics
Matches: 159, Mismatches: 29, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
157 107 0.67
158 50 0.31
159 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.34
Consensus pattern (158 bp):
GGGGATACTCCAACCTCGGTTTTATTTCCAAAACATCGATTTTTCACAATCGAGGATACTCCAAC
CCCATTATTTTCGAGGGGATACTCCAACCCCAGCTTTATTTACAAAACACCAATTTTCCACAATT
GAGGATACTCCAACTCCATTATTTCCGA
Found at i:2690230 original size:143 final size:145
Alignment explanation
Indices: 2689999--2690278 Score: 334
Period size: 143 Copynumber: 1.9 Consensus size: 145
2689989 CTGGTGATCC
* * * **
2689999 TAAAAAACTTGAAAAAGGTTGCAAAGTGTGAATCTATCCTATATATGCATCTTTGGTGTAAGAGT
1 TAAAAAACTTGAAAAAGGTTGAAAAGTGTGAATCTATCCTATATATACACCTTTGGCATAAGAGT
* * * * * *
2690064 GATAACCTAGAACTCAATTTTAG-AAATTACAAAAATGCCCTTAAGGGGTACCTTCGA-TGTAGA
66 GACAACCTAGAACTCAATCTTAGAAAATTACAAAAATACCCCTAAGAGGTACCTTCAACT-TAGA
2690127 AGTACCTGGTACCTTT
130 AGTACCTGGTACCTTT
* * * *
2690143 TAAAGAACTTG-AAAGGGTTGAAAAGAT-TGAATCTATCCTATGTGTACACCTTTGGCATAAGAG
1 TAAAAAACTTGAAAAAGGTTGAAAAG-TGTGAATCTATCCTATATATACACCTTTGGCATAAGAG
* * **
2690206 TTACAACCTAGGACTTGATCTTAGAAAAATTACAAAAATACCCCTAAGAGGTACCTTCAACTTAG
65 TGACAACCTAGAACTCAATCTTAG-AAAATTACAAAAATACCCCTAAGAGGTACCTTCAACTTAG
2690271 AAGTACCT
129 AAGTACCT
2690279 AGTCACCCTA
Statistics
Matches: 113, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
143 60 0.53
144 11 0.10
145 41 0.36
146 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (145 bp):
TAAAAAACTTGAAAAAGGTTGAAAAGTGTGAATCTATCCTATATATACACCTTTGGCATAAGAGT
GACAACCTAGAACTCAATCTTAGAAAATTACAAAAATACCCCTAAGAGGTACCTTCAACTTAGAA
GTACCTGGTACCTTT
Found at i:2691738 original size:51 final size:51
Alignment explanation
Indices: 2691683--2691830 Score: 206
Period size: 51 Copynumber: 2.9 Consensus size: 51
2691673 TCTAGAAAGA
* * * * * *
2691683 AAATGTATCGACACATTTTTTATTGTATCGATACATTTTGGGTTTTAATCC
1 AAATGTATCGATACATTCTTCATTGTATTGATACATTCTAGGTTTTAATCC
* * * *
2691734 AAATGCATTGATACATTCTTCATCGTATTGATACATTCTAGGTTTTGATCC
1 AAATGTATCGATACATTCTTCATTGTATTGATACATTCTAGGTTTTAATCC
2691785 AAATGTATCGATACATTCTTCATTGTATTGATACATTCTAGGTTTT
1 AAATGTATCGATACATTCTTCATTGTATTGATACATTCTAGGTTTT
2691831 TGACCCAAAT
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 84 1.00
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.44
Consensus pattern (51 bp):
AAATGTATCGATACATTCTTCATTGTATTGATACATTCTAGGTTTTAATCC
Found at i:2691854 original size:52 final size:51
Alignment explanation
Indices: 2691744--2691872 Score: 168
Period size: 52 Copynumber: 2.5 Consensus size: 51
2691734 AAATGCATTG
* * * *
2691744 ATACATTCTTCATCGTATTGATACATTCTAGGTTTTGATCCAAATGTATCG
1 ATACATTCTTCATTGTATTGATACATTCTAGGTTTTGACCCAAATATATCA
*
2691795 ATACATTCTTCATTGTATTGATACATTCTAGGTTTTTGACCCAAATATATTA
1 ATACATTCTTCATTGTATTGATACATTCTAGG-TTTTGACCCAAATATATCA
* * * *
2691847 ATGCATTCTTTAATGTATCGATACAT
1 ATACATTCTTCATTGTATTGATACAT
2691873 CCAATTAAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
51 31 0.46
52 37 0.54
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (51 bp):
ATACATTCTTCATTGTATTGATACATTCTAGGTTTTGACCCAAATATATCA
Found at i:2695327 original size:21 final size:19
Alignment explanation
Indices: 2695301--2695374 Score: 85
Period size: 19 Copynumber: 3.7 Consensus size: 19
2695291 TTGCCAGTTT
**
2695301 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
2695322 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
* *
2695341 CATGTATCGATACAAAGCAG
1 CATGTATCGATACAATG-AA
2695361 CATGTATCGATACA
1 CATGTATCGATACA
2695375 TCTGGGTGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
19 18 0.38
20 15 0.31
21 15 0.31
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2706342 original size:13 final size:13
Alignment explanation
Indices: 2706324--2706349 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2706314 CAATTTTTTG
2706324 TGTATCGATACAT
1 TGTATCGATACAT
2706337 TGTATCGATACAT
1 TGTATCGATACAT
2706350 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2706414 original size:21 final size:21
Alignment explanation
Indices: 2706388--2706463 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
2706378 CTGCCAAGAA
*
2706388 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
2706409 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2706429 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2706450 ATGTATCGATACAT
1 ATGTATCGATACAT
2706464 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2706434 original size:20 final size:20
Alignment explanation
Indices: 2706409--2706481 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2706399 CATCTTTTTT
2706409 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
2706429 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
2706450 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2706470 ATGTATCGATAC
1 ATGTATCGATAC
2706482 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2706445 original size:41 final size:41
Alignment explanation
Indices: 2706388--2706481 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
2706378 CTGCCAAGAA
*
2706388 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2706429 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2706470 ATGTATCGATAC
1 ATGTATCGATAC
2706482 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:2707119 original size:17 final size:17
Alignment explanation
Indices: 2707087--2707133 Score: 76
Period size: 17 Copynumber: 2.7 Consensus size: 17
2707077 CTCTCCTTTG
*
2707087 TCTCCCCCGTTTAAAAAA
1 TCTCCCCC-TTAAAAAAA
2707105 TCTCCCCCTTAAAAAAA
1 TCTCCCCCTTAAAAAAA
2707122 TCTCCCCCTTAA
1 TCTCCCCCTTAA
2707134 TCAAGTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 20 0.71
18 8 0.29
ACGTcount: A:0.32, C:0.38, G:0.02, T:0.28
Consensus pattern (17 bp):
TCTCCCCCTTAAAAAAA
Found at i:2708939 original size:13 final size:13
Alignment explanation
Indices: 2708921--2708959 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2708911 ATAATCACCC
*
2708921 TGTATCGATACAG
1 TGTATCGATACAA
2708934 TGTATCGATACAA
1 TGTATCGATACAA
2708947 TGTATCGATACAA
1 TGTATCGATACAA
2708960 AGAAAAATGT
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:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2708970 original size:20 final size:20
Alignment explanation
Indices: 2708945--2709023 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
2708935 GTATCGATAC
2708945 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
2708965 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
2708990 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
2709010 CATGTATCGATACA
1 AATGTATCGATACA
2709024 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:2715133 original size:13 final size:13
Alignment explanation
Indices: 2715115--2715140 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2715105 CAATTTTTTG
2715115 TGTATCGATACAT
1 TGTATCGATACAT
2715128 TGTATCGATACAT
1 TGTATCGATACAT
2715141 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2715205 original size:21 final size:21
Alignment explanation
Indices: 2715179--2715254 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
2715169 CTGCCAAGAA
*
2715179 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
2715200 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2715220 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2715241 ATGTATCGATACAT
1 ATGTATCGATACAT
2715255 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2715225 original size:20 final size:20
Alignment explanation
Indices: 2715200--2715272 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2715190 CATCTTTTTT
2715200 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
2715220 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
2715241 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2715261 ATGTATCGATAC
1 ATGTATCGATAC
2715273 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2715236 original size:41 final size:41
Alignment explanation
Indices: 2715179--2715272 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
2715169 CTGCCAAGAA
*
2715179 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2715220 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2715261 ATGTATCGATAC
1 ATGTATCGATAC
2715273 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:2721167 original size:13 final size:13
Alignment explanation
Indices: 2721149--2721208 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
2721139 ACATTATGCT
2721149 TTGTATCGATACA
1 TTGTATCGATACA
2721162 TTGTATCGATACA
1 TTGTATCGATACA
*
2721175 -T-TAT-G---CT
1 TTGTATCGATACA
2721182 TTGTATCGATACA
1 TTGTATCGATACA
2721195 TTGTATCGATACA
1 TTGTATCGATACA
2721208 T
1 T
2721209 GCCCATTGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.08
10 2 0.05
11 3 0.08
12 1 0.03
13 28 0.72
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2721173 original size:33 final size:33
Alignment explanation
Indices: 2721130--2721208 Score: 149
Period size: 33 Copynumber: 2.4 Consensus size: 33
2721120 CACATCCAGA
*
2721130 TGTATAGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATTATGCTTTGTATCGATACAT
2721163 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATTATGCTTTGTATCGATACAT
2721196 TGTATCGATACAT
1 TGTATCGATACAT
2721209 GCCCATTGTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTATGCTTTGTATCGATACAT
Found at i:2721187 original size:20 final size:20
Alignment explanation
Indices: 2721130--2721196 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 20
2721120 CACATCCAGA
*
2721130 TGTATAGATACATTATGCTT
1 TGTATCGATACATTATGCTT
2721150 TGTATCGATAC---A----T
1 TGTATCGATACATTATGCTT
2721163 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
2721183 TGTATCGATACATT
1 TGTATCGATACATT
2721197 GTATCGATAC
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
13 12 0.31
16 1 0.03
17 1 0.03
20 25 0.64
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTATGCTT
Found at i:2721217 original size:19 final size:20
Alignment explanation
Indices: 2721193--2721248 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 20
2721183 TGTATCGATA
2721193 CATTGTATCGATACATGC-C
1 CATTGTATCGATACATGCTC
*
2721212 CATTGTATCGATACATACTC
1 CATTGTATCGATACATGCTC
*
2721232 AATTGTATCGATACATG
1 CATTGTATCGATACATG
2721249 AAACTAGCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.34
Consensus pattern (20 bp):
CATTGTATCGATACATGCTC
Found at i:2723236 original size:29 final size:29
Alignment explanation
Indices: 2723145--2723236 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 29
2723135 TTTTATATAA
* *
2723145 TTTTATGTATGTTGGGTCATTTAAGTTAT
1 TTTTATGTATGTTGGGTTATTTAAGTCAT
* * * * *
2723174 TTTCTATG-ATCTAAGGATT-TTTATG-CAAA
1 TTT-TATGTATGT-TGGGTTATTTAAGTC-AT
2723203 TTTTATGTATGTTGGGTTATTTAAGTCAT
1 TTTTATGTATGTTGGGTTATTTAAGTCAT
2723232 TTTTA
1 TTTTA
2723237 ATCATCTAAG
Statistics
Matches: 45, Mismatches: 12, Indels: 12
0.65 0.17 0.17
Matches are distributed among these distances:
28 8 0.18
29 29 0.64
30 8 0.18
ACGTcount: A:0.24, C:0.05, G:0.17, T:0.53
Consensus pattern (29 bp):
TTTTATGTATGTTGGGTTATTTAAGTCAT
Found at i:2723340 original size:115 final size:116
Alignment explanation
Indices: 2723160--2723388 Score: 275
Period size: 115 Copynumber: 2.0 Consensus size: 116
2723150 TGTATGTTGG
* * * * * *
2723160 GTCATTTAAGTTATTTTCTATGATCTAAGGATTTTTATGCAAATTTTATGTATGTTGGGTTATTT
1 GTCATTTAAGTCATTTTCTATGATATAAGGACTTTTATGCAAATTTCATGTATGTTAGGTCATTT
* * *
2723225 AAGTCATTTTTAATCATCTA-AGGAATTTTATGTTATTTCATGTATTTTAAT
66 AAGTCATTTTTAATAATCTAGA-GAATTTTATGTAATTTCATATATTTTAAT
* * * *
2723276 GTCATTTAGGTCATTTTTTATTATATAGGGACTTTTATGC-AATTTCATGTA-GTTAAGGTCATT
1 GTCATTTAAGTCATTTTCTATGATATAAGGACTTTTATGCAAATTTCATGTATGTT-AGGTCATT
* * *
2723339 TAGGTCATTTTTCATAATCTAGAGATTTTTATGTAATTTCATATATTTTA
65 TAAGTCATTTTTAATAATCTAGAGAATTTTATGTAATTTCATATATTTTA
2723389 GAAATATTTA
Statistics
Matches: 95, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
114 3 0.03
115 58 0.61
116 34 0.36
ACGTcount: A:0.28, C:0.08, G:0.14, T:0.51
Consensus pattern (116 bp):
GTCATTTAAGTCATTTTCTATGATATAAGGACTTTTATGCAAATTTCATGTATGTTAGGTCATTT
AAGTCATTTTTAATAATCTAGAGAATTTTATGTAATTTCATATATTTTAAT
Found at i:2723369 original size:57 final size:58
Alignment explanation
Indices: 2723143--2723380 Score: 216
Period size: 58 Copynumber: 4.1 Consensus size: 58
2723133 ACTTTTATAT
* * * *
2723143 AATTTTATGTATGTT-GGGTCATTTAAGTTA-TTTTCTATGATCTAAGGATTTTTATGC
1 AATTTCATGTATGTTAAGGTCATTTAAGTCATTTTTC-ATAATCTAAGGATTTTTATGC
* * * * * * *
2723200 AAATTTTATGTATGTT-GGGTTATTTAAGTCATTTTTAATCATCTAAGGAATTTTATGT
1 -AATTTCATGTATGTTAAGGTCATTTAAGTCATTTTTCATAATCTAAGGATTTTTATGC
* * * * * * * * *
2723258 TATTTCATGTATTTTAATGTCATTTAGGTCATTTTTTATTATATAGGGACTTTTATGC
1 AATTTCATGTATGTTAAGGTCATTTAAGTCATTTTTCATAATCTAAGGATTTTTATGC
* *
2723316 AATTTCATGTA-GTTAAGGTCATTTAGGTCATTTTTCATAATCT-AGAGATTTTTATGT
1 AATTTCATGTATGTTAAGGTCATTTAAGTCATTTTTCATAATCTAAG-GATTTTTATGC
2723373 AATTTCAT
1 AATTTCAT
2723381 ATATTTTAGA
Statistics
Matches: 149, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
56 1 0.01
57 56 0.38
58 88 0.59
59 4 0.03
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.50
Consensus pattern (58 bp):
AATTTCATGTATGTTAAGGTCATTTAAGTCATTTTTCATAATCTAAGGATTTTTATGC
Found at i:2725739 original size:19 final size:19
Alignment explanation
Indices: 2725694--2725749 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
2725684 CTGCCAGTTT
*
2725694 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAA
*
2725714 TATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
2725733 CATGTATCCATACAATG
1 CATGTATCGATACAATG
2725750 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2735116 original size:19 final size:20
Alignment explanation
Indices: 2735077--2735119 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
2735067 TTCATATATC
* *
2735077 GATACAATTATGCATGTATT
1 GATACAATAATGCAAGTATT
2735097 GATACAATAAT-CAAGTATT
1 GATACAATAATGCAAGTATT
2735116 GATA
1 GATA
2735120 TAGTGTATCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (20 bp):
GATACAATAATGCAAGTATT
Found at i:2736299 original size:21 final size:21
Alignment explanation
Indices: 2736249--2736301 Score: 76
Period size: 18 Copynumber: 2.7 Consensus size: 21
2736239 TTCCTCATGC
2736249 TCGTCATCTTGTTGAGCAATA
1 TCGTCATCTTGTTGAGCAATA
2736270 ---TCATCTTGTTGAGCAATA
1 TCGTCATCTTGTTGAGCAATA
*
2736288 TCGTCATGTTGTTG
1 TCGTCATCTTGTTG
2736302 TGCCACCAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 18 0.64
21 10 0.36
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.42
Consensus pattern (21 bp):
TCGTCATCTTGTTGAGCAATA
Found at i:2739855 original size:14 final size:14
Alignment explanation
Indices: 2739836--2739865 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2739826 TTTCTACATC
2739836 ATTGTTAACAAAAG
1 ATTGTTAACAAAAG
2739850 ATTGTTAACAAAAG
1 ATTGTTAACAAAAG
2739864 AT
1 AT
2739866 ACCTTCCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (14 bp):
ATTGTTAACAAAAG
Found at i:2743962 original size:13 final size:13
Alignment explanation
Indices: 2743944--2743970 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2743934 ACAATTATGC
2743944 ATGTATCGATACA
1 ATGTATCGATACA
2743957 ATGTATCGATACA
1 ATGTATCGATACA
2743970 A
1 A
2743971 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2744435 original size:19 final size:19
Alignment explanation
Indices: 2744390--2744445 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
2744380 TTGCCAGTTT
* *
2744390 CATGTATCGTTACAATTGAG
1 CATGTATCGATACAA-TGAA
*
2744410 TATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
2744429 CATGTATCGATACAATG
1 CATGTATCGATACAATG
2744446 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2744448 original size:13 final size:13
Alignment explanation
Indices: 2744430--2744456 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2744420 TACAATGAAC
2744430 ATGTATCGATACA
1 ATGTATCGATACA
2744443 ATGTATCGATACA
1 ATGTATCGATACA
2744456 A
1 A
2744457 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Done.